RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254780799|ref|YP_003065212.1| DNA translocase FtsK
[Candidatus Liberibacter asiaticus str. psy62]
         (806 letters)



>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome
           partition, ATP-binding, DNA- binding, cell division,
           transmembrane, inner membrane; HET: DNA; 2.7A
           {Escherichia coli} PDB: 2j5p_A* (A:136-512)
          Length = 377

 Score =  230 bits (586), Expect = 6e-61
 Identities = 190/382 (49%), Positives = 238/382 (62%), Gaps = 8/382 (2%)

Query: 424 SRVFEKNQCDLAINLGKSIEGKPIIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMT 483
           +  F  N   L + LGK I G+P++ADLA+MPHLL+AGTTGSG SV +N MILS+LY+  
Sbjct: 2   NAKFRDNPSPLTVVLGKDIAGEPVVADLAKMPHLLVAGTTGSGASVGVNAMILSMLYKAQ 61

Query: 484 PAQCRLIMIDPKMLELSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVR 543
           P   R IMIDPKMLELSVY+GIP+LLT VVT+ + A   L+W V EME RY+ MS +GVR
Sbjct: 62  PEDVRFIMIDPKMLELSVYEGIPHLLTEVVTDMKDAANALRWCVNEMERRYKLMSALGVR 121

Query: 544 NIDGFNLKVAQYHNTGKKFNRTVQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLM 603
           N+ G+N K+A+     +          D    +          +  PYIVV++DE ADLM
Sbjct: 122 NLAGYNEKIAEADRMMRPIPDPYWKPGDSMDAQHPV------LKKEPYIVVLVDEFADLM 175

Query: 604 MVARKDIESAVQRLAQMARASGIHVIMATQRPSVDVITGTIKANFPTRISFQVSSKIDSR 663
           M   K +E  + RLAQ ARA+GIH+++ATQRPSVDVITG IKAN PTRI+F VSSKIDSR
Sbjct: 176 MTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSR 235

Query: 664 TILGEQGAEQLLGQGDMLYM-TGGGRVQRIHGPFVSDIEVEKVVSHLKTQGEAKYID-IK 721
           TIL + GAE LLG GDMLY         R+HG FV D EV  VV   K +G  +Y+D I 
Sbjct: 236 TILDQAGAESLLGMGDMLYSGPNSTLPVRVHGAFVRDQEVHAVVQDWKARGRPQYVDGIT 295

Query: 722 DKILLNEEMRFSENSSVADDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEE 781
                       + +   D L+ QAV  V    KASIS +QR+  IGYNRAA IIE ME 
Sbjct: 296 SDSESEGGAGGFDGAEELDPLFDQAVQFVTEKRKASISGVQRQFRIGYNRAARIIEQMEA 355

Query: 782 KGVIGPASSTGKREILISSMEE 803
           +G++      G RE+L     +
Sbjct: 356 QGIVSEQGHNGNREVLAPPPFD 377


>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome
           partition, ATP-binding, DNA- binding, cell division,
           transmembrane, inner membrane; HET: DNA ATG; 2.25A
           {Pseudomonas aeruginosa} PDB: 2iuu_A* (A:183-574)
          Length = 392

 Score =  209 bits (533), Expect = 9e-55
 Identities = 193/380 (50%), Positives = 247/380 (65%), Gaps = 16/380 (4%)

Query: 433 DLAINLGKSIEGKPIIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMI 492
            + + LG  I G+PII DLA+MPHLL+AGTTGSGKSV +N M+LS+L++ TP++ RLIMI
Sbjct: 11  TVPLALGHDIGGRPIITDLAKMPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMI 70

Query: 493 DPKMLELSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKV 552
           DPKMLELS+Y+GIP+LL PVVT+ ++A   L+W V EME RY+ M+ +GVRN+ GFN KV
Sbjct: 71  DPKMLELSIYEGIPHLLCPVVTDMKEAANALRWSVAEMERRYRLMAAMGVRNLAGFNRKV 130

Query: 553 AQYHNTGKKFNRTVQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIES 612
                 G      +             + E      +P IVVV+DE AD+MM+  K +E 
Sbjct: 131 KDAEEAGTPLTDPLFRRESP-------DDEPPQLSTLPTIVVVVDEFADMMMIVGKKVEE 183

Query: 613 AVQRLAQMARASGIHVIMATQRPSVDVITGTIKANFPTRISFQVSSKIDSRTILGEQGAE 672
            + R+AQ ARA+GIH+I+ATQRPSVDVITG IKAN PTRI+FQVSSKIDSRTIL + GAE
Sbjct: 184 LIARIAQKARAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTILDQGGAE 243

Query: 673 QLLGQGDMLYM-TGGGRVQRIHGPFVSDIEVEKVVSHLKTQGEAKYIDIKDKILLNEEM- 730
           QLLG GDMLY+  G G   R+HG FVSD EV +VV   K +G   YI+     +      
Sbjct: 244 QLLGHGDMLYLPPGTGLPIRVHGAFVSDDEVHRVVEAWKLRGAPDYIEDILAGVDEGGGG 303

Query: 731 -------RFSENSSVADDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKG 783
                    S   S  D LY +AV  V    +ASIS +QR+L IGYNRAA +IE ME  G
Sbjct: 304 GGSFDGGDGSGEGSEDDPLYDEAVRFVTESRRASISAVQRKLKIGYNRAARMIEAMEMAG 363

Query: 784 VIGPASSTGKREILISSMEE 803
           V+ P ++ G RE++  +   
Sbjct: 364 VVTPMNTNGSREVIAPAPVR 383


>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome
           partition, ATP-binding, DNA- binding, cell division,
           transmembrane, inner membrane; HET: DNA ATG; 2.25A
           {Pseudomonas aeruginosa} PDB: 2iuu_A* (A:1-182)
          Length = 182

 Score =  143 bits (363), Expect = 6e-35
 Identities = 47/128 (36%), Positives = 78/128 (60%), Gaps = 3/128 (2%)

Query: 296 QSNLINHGTGTFVLPSKEILSTSQSPVNQMTFSPKVMQNNACTLKSVLSDFGIQGEIVNV 355
           Q+ L         LP   +L    + V Q ++SP+ ++  +  L+  L +FG++  + +V
Sbjct: 57  QAPLFVDTAVEGTLPPLSLLD--PAEVKQKSYSPESLEAMSRLLEIKLKEFGVEVSVDSV 114

Query: 356 RPGPVITLYELEPAPGIKSSRIIGLSDDIARSMSAISARV-AVIPRRNAIGIELPNDIRE 414
            PGPVIT +E++PA G+K SRI  L+ D+ARS++ IS RV  VIP +  +GIE+PN+ R+
Sbjct: 115 HPGPVITRFEIQPAAGVKVSRISNLAKDLARSLAVISVRVVEVIPGKTTVGIEIPNEDRQ 174

Query: 415 TVMLRDLI 422
            V   +++
Sbjct: 175 MVRFSEVL 182


>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome
           partition, ATP-binding, DNA- binding, cell division,
           transmembrane, inner membrane; HET: DNA; 2.7A
           {Escherichia coli} PDB: 2j5p_A* (A:1-135)
          Length = 135

 Score =  141 bits (358), Expect = 3e-34
 Identities = 49/119 (41%), Positives = 76/119 (63%), Gaps = 3/119 (2%)

Query: 305 GTFVLPSKEILSTSQSPVNQMTFSPKVMQNNACTLKSVLSDFGIQGEIVNVRPGPVITLY 364
            T  LPS ++L+    P          ++  A  +++ L+DF I+ ++VN  PGPVIT +
Sbjct: 19  PTTPLPSLDLLT--PPPSEVEPVDTFALEQMARLVEARLADFRIKADVVNYSPGPVITRF 76

Query: 365 ELEPAPGIKSSRIIGLSDDIARSMSAISARV-AVIPRRNAIGIELPNDIRETVMLRDLI 422
           EL  APG+K++RI  LS D+ARS+S ++ RV  VIP +  +G+ELPN  R+TV LR+++
Sbjct: 77  ELNLAPGVKAARISNLSRDLARSLSTVAVRVVEVIPGKPYVGLELPNKKRQTVYLREVL 135


>2ve8_A FTSK, DNA translocase FTSK; nucleotide-binding, chromosome
           partition, ATP-binding, DNA-binding, winged helix,
           bacterial cell division; HET: DNA; 1.4A {Pseudomonas
           aeruginosa} (A:)
          Length = 73

 Score =  104 bits (262), Expect = 4e-23
 Identities = 32/71 (45%), Positives = 43/71 (60%)

Query: 733 SENSSVADDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVIGPASSTG 792
           S   S  D LY +AV  V    +ASIS +QR+L IGYNRAA +IE ME  GV+ P ++ G
Sbjct: 2   SGEGSEDDPLYDEAVRFVTESRRASISAVQRKLKIGYNRAARMIEAMEMAGVVTPMNTNG 61

Query: 793 KREILISSMEE 803
            RE++  +   
Sbjct: 62  SREVIAPAPVR 72


>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
           conjugation, F1-ATPase-like quaternary structure, ring
           helicases; 2.4A {Escherichia coli}
           (A:24-137,A:224-347,A:402-437)
          Length = 274

 Score =  104 bits (261), Expect = 4e-23
 Identities = 40/254 (15%), Positives = 80/254 (31%), Gaps = 31/254 (12%)

Query: 426 VFEKNQCDLAINLGKSI-EGKPIIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTP 484
           V       +     K +      +   A   HLL+ G TG+GKSV +  +  + L R   
Sbjct: 1   VSGGKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSVLLRELAYTGLLRGDR 60

Query: 485 AQCRLIMIDPKMLELS-VYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVR 543
               ++++DP    LS        +L P     Q+      +     +  +Q+ +   V 
Sbjct: 61  ----MVIVDPNGDMLSKFGRDKDIILNPY---DQRTKGWSFFNEIRNDYDWQRYALSVVP 113

Query: 544 NIDGFNLKVAQYHNTGKKFNRTVQTGFDRKT----------GEAIYETEHFDFQHMPYIV 593
            +   +  +  +       N  +    D                         +    + 
Sbjct: 114 RMPDGDFSIRSWLEDPNGGNLFITWREDMGPALRPLISAWVDVVCTSILSLPEEPKRRLW 173

Query: 594 VVIDEMADLMMVARKDIESAVQRLAQMARASGIHVIMATQRPS------VDVITGTIKAN 647
           + IDE+A L         +++       R +G+ V+   Q  S            T++A+
Sbjct: 174 LFIDELASLEK------LASLADALTKGRKAGLRVVAGLQSTSQLDDVYGVKEAQTLRAS 227

Query: 648 FPTRISFQVSSKID 661
           F + +    S  + 
Sbjct: 228 FRSLVVLGGSRDLT 241


>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
           translation termination, ATP-binding, cytoplasm,
           hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
           (A:1-326)
          Length = 326

 Score = 40.1 bits (93), Expect = 0.001
 Identities = 28/190 (14%), Positives = 63/190 (33%), Gaps = 37/190 (19%)

Query: 440 KSIEGKPIIADLARMPHLLIA-GTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLE 498
           K++   P++  L+  P  +I    +G+GK+ A    +LS +    P    + +   + L 
Sbjct: 148 KAL---PLL--LSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELA 202

Query: 499 LSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNT 558
             + D +  +            T +K      +   +   KI  + + G    V      
Sbjct: 203 RQIMDVVTEMGKY---------TEVKTAFGIKDSVPKGA-KIDAQIVIGTPGTVMDLMKR 252

Query: 559 GKKFNRTVQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIE----SA- 613
            +   R ++        EA    +              D+   +  +  ++ +    SA 
Sbjct: 253 RQLDARDIKVFVLD---EADNMLDQQGL---------GDQSMRIKHLLPRNTQIVLFSAT 300

Query: 614 ----VQRLAQ 619
               V++ A+
Sbjct: 301 FSERVEKYAE 310


>1p9r_A General secretion pathway protein E; bacterial type II
           secretion system cytoplasmic protein - GSPE, putative
           ATPase/ ATP binding protein; 2.50A {Vibrio cholerae}
           (A:147-418)
          Length = 272

 Score = 33.9 bits (76), Expect = 0.083
 Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 6/65 (9%)

Query: 437 NLGKSIEGKPIIADLARMPH--LLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDP 494
           +LG +         L + PH  +L+ G TGSGKS    T + + L  +  ++  ++ ++ 
Sbjct: 2   SLGXTAHNHDNFRRLIKRPHGIILVTGPTGSGKS----TTLYAGLQELNSSERNILTVED 57

Query: 495 KMLEL 499
            +   
Sbjct: 58  PIEFD 62


>3dma_A Exopolyphosphatase-related protein; structural genomics,
           PSI-2, protein structure initiative, northeast
           structural genomics consortium, NESG; 2.25A {Bacteroides
           fragilis} (A:1-214)
          Length = 214

 Score = 32.1 bits (72), Expect = 0.30
 Identities = 5/38 (13%), Positives = 15/38 (39%)

Query: 607 RKDIESAVQRLAQMARASGIHVIMATQRPSVDVITGTI 644
           +   ++ +    +    +   VI++   P  D I  ++
Sbjct: 4   KVIAQAHIDHFTKWFERADKIVIVSHVSPDGDAIGSSL 41


>2ewv_A Twitching motility protein PILT; pilus retraction motor,
           ATPase, hexameric PILT, protein transport; HET: ADP;
           2.80A {Aquifex aeolicus VF5} PDB: 2eww_A* 2gsz_A*
           (A:125-372)
          Length = 248

 Score = 31.6 bits (70), Expect = 0.35
 Identities = 21/125 (16%), Positives = 42/125 (33%), Gaps = 9/125 (7%)

Query: 446 PIIADLARMPH--LLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYD 503
             + +L       +L+ G TGSGKS    T I S++  +   +   I+     +E     
Sbjct: 2   DKVLELCHRKMGLILVTGPTGSGKS----TTIASMIDYINQTKSYHIITIEDPIEYVFKH 57

Query: 504 GIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFN 563
               +    V    K+           +     + ++  R+++       +   TG    
Sbjct: 58  KKSIVNQREVGEDTKSFADALRAALREDPDVIFVGEM--RDLETVET-ALRAAETGHLVF 114

Query: 564 RTVQT 568
            T+ T
Sbjct: 115 GTLHT 119


>1bf6_A Phosphotriesterase homology protein; hypothetical protein;
           1.70A {Escherichia coli} (A:1-88,A:234-291)
          Length = 146

 Score = 31.2 bits (71), Expect = 0.46
 Identities = 6/19 (31%), Positives = 11/19 (57%)

Query: 614 VQRLAQMARASGIHVIMAT 632
            Q +  + R +GI+V+  T
Sbjct: 62  AQFMLDVMRETGINVVACT 80


>2e1c_A Putative HTH-type transcriptional regulator PH1519;
           DNA-binding; HET: DNA; 2.10A {Pyrococcus horikoshii OT3}
           (A:1-77)
          Length = 77

 Score = 31.3 bits (71), Expect = 0.47
 Identities = 14/60 (23%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 727 NEEMRFSENSSVA-DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           +  +    +  V  D++ K+ + I+  D KA +  I +  G+  +     I  + E GVI
Sbjct: 12  SGLVPRGSHMRVPLDEIDKKIIKILQNDGKAPLREISKITGLAESTIHERIRKLRESGVI 71


>2cg4_A Regulatory protein ASNC; DNA binding, FFRP, LRP family,
           transcription, DNA- binding, transcription regulation;
           2.4A {Escherichia coli} (A:1-55)
          Length = 55

 Score = 31.1 bits (71), Expect = 0.51
 Identities = 7/46 (15%), Positives = 25/46 (54%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D+L +  ++ ++ + + + + + ++ G+        +E M++ G+I
Sbjct: 4   DNLDRGILEALMGNARTAYAELAKQFGVSPETIHVRVEKMKQAGII 49


>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.);
           complex (helicase/DNA), DNA unwinding, hydrolase/DNA
           complex; HET: DNA; 3.00A {Escherichia coli}
           (A:1-102,A:185-277)
          Length = 195

 Score = 31.3 bits (70), Expect = 0.52
 Identities = 8/43 (18%), Positives = 13/43 (30%)

Query: 452 ARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDP 494
                 L+    GSGK+  I   I  L+         +  +  
Sbjct: 13  FVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTF 55


>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase,
           ATP- binding, DNA-binding; 2.50A {Geobacillus
           stearothermophilus} (A:1-107,A:194-286)
          Length = 200

 Score = 30.9 bits (69), Expect = 0.55
 Identities = 11/39 (28%), Positives = 16/39 (41%)

Query: 456 HLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDP 494
            LLI    GSGK+  +   I  L+     A   ++ I  
Sbjct: 26  PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITF 64


>2dbb_A Putative HTH-type transcriptional regulator PH0061; ASNC
           family, helix-turn-helix (HTH) domain, structural
           genomics, NPPSFA; 2.00A {Pyrococcus horikoshii OT3}
           (A:1-58)
          Length = 58

 Score = 30.7 bits (70), Expect = 0.65
 Identities = 10/46 (21%), Positives = 22/46 (47%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D +  Q V I+  +++ +   +   L     R A  I+ +++ G+I
Sbjct: 8   DRVDMQLVKILSENSRLTYRELADILNTTRQRIARRIDKLKKLGII 53


>2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573,
           structural genomics; 1.99A {Neisseria meningitidis MC58}
           PDB: 2p6s_A 2p6t_A (A:1-60)
          Length = 60

 Score = 30.7 bits (70), Expect = 0.66
 Identities = 4/46 (8%), Positives = 21/46 (45%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D    + + ++  + + +   +  R+ +  +     ++ +E+ G++
Sbjct: 9   DKTDIKILQVLQENGRLTNVELSERVALSPSPCLRRLKQLEDAGIV 54


>2w25_A Probable transcriptional regulatory protein; transcription
           regulation, mutant, RV3291C, Glu104Ala, DNA-binding;
           2.15A {Mycobacterium tuberculosis} PDB: 2vbw_A* 2vbx_A*
           2vby_A* 2vbz_A* 2vc0_A 2vc1_A 2w24_A 2ivm_A 2w29_A
           2qz8_A (A:1-56)
          Length = 56

 Score = 30.7 bits (70), Expect = 0.67
 Identities = 12/46 (26%), Positives = 25/46 (54%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           DD+ +  V  +  D +A++S +  R G+  +   S +  +E +GV+
Sbjct: 6   DDIDRILVRELAADGRATLSELATRAGLSVSAVQSRVRRLESRGVV 51


>2pn6_A ST1022, 150AA long hypothetical transcriptional regulator;
           LRP/ASNC family Gln binding, structural genomics,
           NPPSFA; HET: GLN; 1.44A {Sulfolobus tokodaii} PDB:
           2efn_A* 2e7x_A* 2e7w_A* 2yx4_A* 2efq_A* 2pmh_A* 2yx7_A*
           2efp_A* 2efo_A* (A:1-53)
          Length = 53

 Score = 30.7 bits (70), Expect = 0.69
 Identities = 12/46 (26%), Positives = 24/46 (52%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D++  + + I+  + K S+  I R + I     +  I+ +E+ GVI
Sbjct: 2   DEIDLRILKILQYNAKYSLDEIAREIRIPKATLSYRIKKLEKDGVI 47


>2cfx_A HTH-type transcriptional regulator LRPC; transcriptional
           regulation, DNA binding, FFRP; 2.4A {Bacillus subtilis}
           (A:1-55)
          Length = 55

 Score = 30.7 bits (70), Expect = 0.70
 Identities = 7/46 (15%), Positives = 22/46 (47%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D +    ++ + +D++ S+  + R++ +        +  +E  G+I
Sbjct: 4   DQIDLNIIEELKKDSRLSMRELGRKIKLSPPSVTERVRQLESFGII 49


>1i1g_A Transcriptional regulator LRPA; helix-turn-helix, LRP/ASNC
           family; 2.90A {Pyrococcus furiosus} (A:1-54)
          Length = 54

 Score = 30.7 bits (70), Expect = 0.78
 Identities = 13/46 (28%), Positives = 26/46 (56%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D+  K  ++I+ +D +   + I ++LGI        ++ +EEKG+I
Sbjct: 3   DERDKIILEILEKDARTPFTEIAKKLGISETAVRKRVKALEEKGII 48


>2cyy_A Putative HTH-type transcriptional regulator PH1519;
           structural genomics, pyrococcus horikosii OT3, NPPSFA;
           HET: MSE GLN; 1.80A {Pyrococcus horikoshii} (A:1-57)
          Length = 57

 Score = 30.7 bits (70), Expect = 0.78
 Identities = 13/46 (28%), Positives = 23/46 (50%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D++ K+ + I+  D KA +  I +  G+  +     I  + E GVI
Sbjct: 6   DEIDKKIIKILQNDGKAPLREISKITGLAESTIHERIRKLRESGVI 51


>2ia0_A Putative HTH-type transcriptional regulator PF0864; ASNC,
           PSI, structural genomics, southeast collaboratory for
           structural genomics; 2.37A {Pyrococcus furiosus}
           (A:1-66)
          Length = 66

 Score = 30.4 bits (69), Expect = 0.81
 Identities = 12/46 (26%), Positives = 26/46 (56%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           DDL +  + ++ +D + +IS +  +L    +     I+ ++E+GVI
Sbjct: 16  DDLDRNILRLLKKDARLTISELSEQLKKPESTIHFRIKKLQERGVI 61


>1yks_A Genome polyprotein [contains: flavivirin protease NS3
           catalytic subunit]; helicase, flavivirus, DEAD-BOX,
           ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus}
           (A:1-145,A:303-387)
          Length = 230

 Score = 30.1 bits (67), Expect = 1.0
 Identities = 7/46 (15%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 451 LARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKM 496
           L +    ++    G+GK+      +  +L      + R +++ P  
Sbjct: 5   LKKGMTTVLDFHPGAGKTRRF---LPQILAECARRRLRTLVLAPTR 47


>3enu_A Nitrollin, putative uncharacterized protein; betagamma
           crystallin, structural protein; 1.86A {Nitrosospira
           multiformis} PDB: 3ent_A (A:)
          Length = 114

 Score = 30.0 bits (67), Expect = 1.1
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 677 QGDMLYMTGGGRVQRIHGPFVSDIE 701
           QGD L+++G   + R+ GPF  D E
Sbjct: 34  QGDSLFLSGPATLPRLIGPFGYDWE 58


>2vbc_A Dengue 4 NS3 FULL-length protein; transmembrane, RNA
           replication, NS2B-NS3 protease; 3.15A {Dengue virus type
           4} (A:176-323,A:482-562)
          Length = 229

 Score = 29.7 bits (66), Expect = 1.2
 Identities = 6/50 (12%), Positives = 13/50 (26%)

Query: 447 IIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKM 496
                 +    ++    G+GK+  I   I+    +       L       
Sbjct: 4   DEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLRTLILAPTRVVA 53


>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP,
           GTPase, ultrahigh resolution, protein transport; 1.10A
           {Thermus aquaticus} (A:93-277)
          Length = 185

 Score = 29.6 bits (65), Expect = 1.4
 Identities = 18/168 (10%), Positives = 39/168 (23%), Gaps = 11/168 (6%)

Query: 457 LLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPK-----MLELSVYDGIPNLLTP 511
             + G  GSGK+     + L    +                   +  L    G+P L   
Sbjct: 9   WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVM 68

Query: 512 VVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFD 571
              +P+     ++            +   G   ID   +          +    +     
Sbjct: 69  DGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELA------RLKEVLGPDEV 122

Query: 572 RKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQRLAQ 619
               +A+   E           V +  +    +       +A+     
Sbjct: 123 LLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAALSARHV 170


>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B;
           mixed alpha-beta fold, elongated beta-sheet, walker A
           motif, P-loop structural motif; 1.90A {Escherichia coli}
           (A:)
          Length = 174

 Score = 29.5 bits (65), Expect = 1.8
 Identities = 19/162 (11%), Positives = 47/162 (29%), Gaps = 4/162 (2%)

Query: 453 RMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPV 512
            +P L  A  +G+GK+    T++  L+  +     R  +I     ++ V     +     
Sbjct: 5   MIPLLAFAAWSGTGKT----TLLKKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELR 60

Query: 513 VTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDR 572
                + +   +     M E   +            +             +  +      
Sbjct: 61  KAGAAQTIVASQQRWALMTETPDEEELDLQFLASRMDTSKLDLILVEGFKHEEIAKIVLF 120

Query: 573 KTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAV 614
           + G      E    +H+  +   +    D+ ++   D+E   
Sbjct: 121 RDGAGHRPEELVIDRHVIAVASDVPLNLDVALLDINDVEGLA 162


>3h1t_A Type I site-specific restriction-modification system, R
           (restriction) subunit; hydrolase, restriction enzyme
           HSDR, ATP-binding; 2.30A {Vibrio vulnificus} (A:170-361)
          Length = 192

 Score = 29.3 bits (64), Expect = 1.8
 Identities = 16/163 (9%), Positives = 36/163 (22%), Gaps = 32/163 (19%)

Query: 455 PHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPVVT 514
              LI   TG+GK+V    +   L                  L                 
Sbjct: 30  KRSLITXATGTGKTVVAFQISWKLWSARWNRTGDYRKPRILFL----------------- 72

Query: 515 NPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDRKT 574
                      LV + +++               + +         K        +    
Sbjct: 73  ------ADRNVLVDDPKDKTFTPFG---------DARHKIEGGKVVKSREIYFAIYQSIA 117

Query: 575 GEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQRL 617
            +      + +F    + +++IDE          +    ++  
Sbjct: 118 SDERRPGLYKEFPQDFFDLIIIDECHRGSARDNSNWREILEYF 160


>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur
           cluster, ABC-ATPase, ATP-binding, cytoplasm,
           nucleotide-binding; HET: MES; 2.20A {Escherichia coli}
           PDB: 2d3w_A (C:)
          Length = 267

 Score = 29.4 bits (65), Expect = 1.8
 Identities = 40/211 (18%), Positives = 67/211 (31%), Gaps = 19/211 (9%)

Query: 437 NLGKSIEGKPIIAD----LARMPHLLIAGTTGSGKSVAINTMILSLLYRMT--PAQCRLI 490
           +L  S+E K I+      +       I G  GSGKS    T+     Y +T    + +  
Sbjct: 25  DLHVSVEDKAILRGLSLDVHPGEVHAIMGPNGSGKSTLSATLAGREDYEVTGGTVEFKGK 84

Query: 491 MIDPKMLELSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNI-DGFN 549
            +     E    +GI       V  P  +              Y+    +   +  D   
Sbjct: 85  DLLALSPEDRAGEGIFMAFQYPVEIPGVSNQFFLQTALNAVRSYRGQETLDRFDFQDLME 144

Query: 550 LKVAQYHNTGKKFNRTVQTGFD--RKTGEAIYETEHFDFQHMPYIVVVIDE-MADLMMVA 606
            K+A          R+V  GF    K    I +    + +     + ++DE  + L + A
Sbjct: 145 EKIALLKMPEDLLTRSVNVGFSGGEKKRNDILQMAVLEPE-----LCILDESDSGLDIDA 199

Query: 607 RKDIESAVQRLAQMARASGIHVIMATQRPSV 637
            K +   V  L    R      I+ T    +
Sbjct: 200 LKVVADGVNSL----RDGKRSFIIVTHYQRI 226


>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain,
           helix turn helix motif, structural genomics, NPPSFA; NMR
           {Homo sapiens} (A:)
          Length = 98

 Score = 29.4 bits (66), Expect = 1.9
 Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 4/50 (8%)

Query: 734 ENSSVADDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKG 783
               +A    K    +    N+ S   ++    IG  +A  I+   E  G
Sbjct: 19  SPELLAHGRQKILDLL----NEGSARDLRSLQRIGPKKAQLIVGWRELHG 64


>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC,
           cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo
           sapiens} (B:)
          Length = 263

 Score = 28.9 bits (63), Expect = 2.3
 Identities = 18/189 (9%), Positives = 51/189 (26%), Gaps = 9/189 (4%)

Query: 453 RMPHLLIAGTTGSGKSVAINTMI-------LSLLYRMTPAQCRLIMIDPKMLELSVYDGI 505
           R+  + I G   +GKS  +N +        +           +    + + L +S  +G 
Sbjct: 23  RIKKISIEGNIAAGKSTFVNILKQLCEDWEVVPEPVARWCNVQSTQDEFEELTMSQKNGG 82

Query: 506 PNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRT 565
             L        + + T   +                +++ +   L   +   + +    +
Sbjct: 83  NVLQMMYEKPERWSFTFQTYACLSRIRAQLASLNGKLKDAEKPVLFFERSVYSDRYIFAS 142

Query: 566 VQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQRLAQMARASG 625
                +           + D+              D ++  +   E+ + R+    R   
Sbjct: 143 NLYESECMNETEWT--IYQDWHDWMNNQFGQSLELDGIIYLQATPETCLHRIYLRGRNEE 200

Query: 626 IHVIMATQR 634
             + +    
Sbjct: 201 QGIPLEYLE 209


>2nr9_A Protein GLPG homolog; intramembrane peptidase, rhomboid
           protease, membrane protein, X-RAY crystallography; HET:
           PA6 PQE; 2.20A {Haemophilus influenzae 86-028np} (A:)
          Length = 196

 Score = 28.9 bits (64), Expect = 2.3
 Identities = 18/169 (10%), Positives = 43/169 (25%), Gaps = 12/169 (7%)

Query: 18  LSDWSKKKMKIVAGLILLCT-VFAITLALGTWDVYDPSFSYITLRSPKNFLGYGGAIFAD 76
           + ++  ++ KI   L  LC  ++         D+                  Y       
Sbjct: 1   MENFLAQQGKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVH 60

Query: 77  VAIQFFGIASVFFLPPPTMWALSLLFDKKIYCFSKRATAWLINILVSATFFASFSPSQSW 136
                     + F     +    +        F       L  +  + T +       S 
Sbjct: 61  -----LSNLHILF----NLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQN--YVSG 109

Query: 137 PIQNGFGGIIGDLIIRLPFLFFESYPRKLGILFFQMILFLAMSWLLIYS 185
           P   G  G++  ++  +      ++        F  +L + ++   I  
Sbjct: 110 PAFFGLSGVVYAVLGYVFIRDKLNHHLFDLPEGFFTMLLVGIALGFISP 158


>3b8c_A ATPase 2, plasma membrane-type; P-type ATPase, proton pump,
           ATP-binding, hydrogen ION transport, hydrolase, ION
           transport; HET: ACP; 3.60A {Arabidopsis thaliana}
           (A:288-342,A:490-655)
          Length = 221

 Score = 29.0 bits (64), Expect = 2.4
 Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 4/30 (13%)

Query: 603 MMVARKDIESAVQRLAQMARASGIHVIMAT 632
           + V R D    ++R        G++V M T
Sbjct: 52  LSVDRHDSAETIRRA----LNLGVNVKMIT 77


>3eef_A N-carbamoylsarcosine amidase related protein; structural
           genomics, PSI-2, protein structure initiative; 2.35A
           {Thermoplasma acidophilum} (A:)
          Length = 182

 Score = 29.1 bits (64), Expect = 2.4
 Identities = 7/48 (14%), Positives = 18/48 (37%), Gaps = 5/48 (10%)

Query: 593 VVVIDEMADLM-----MVARKDIESAVQRLAQMARASGIHVIMATQRP 635
           +VV+D + + +                +++ +  R SG+ V+      
Sbjct: 5   LVVVDXVNEFIHGRLATPEAXKTVGPARKVIETFRRSGLPVVYVNDSH 52


>3hjh_A Transcription-repair-coupling factor; MFD, mutation
           frequency decline, transcription-coupled DNA repair,
           ATP-binding, DNA damage, DNA repair; 1.95A {Escherichia
           coli} PDB: 2b2n_A* (A:1-115,A:266-483)
          Length = 333

 Score = 28.9 bits (63), Expect = 2.6
 Identities = 3/35 (8%), Positives = 9/35 (25%)

Query: 447 IIADLARMPHLLIAGTTGSGKSVAINTMILSLLYR 481
               +      L+   TG+  +  +  +       
Sbjct: 7   YTLPVKAGEQRLLGELTGAACATLVAEIAERHAGP 41


>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA
           replication, DNA repair, DNA recombination, hydrolase;
           2.90A {Pyrococcus furiosus dsm 3638} (A:1-196)
          Length = 196

 Score = 28.8 bits (63), Expect = 2.7
 Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 3/50 (6%)

Query: 447 IIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKM 496
           +I    +  + LI   TG GK++     ++   YR+T    +++M+ P  
Sbjct: 16  VIYAKCKETNCLIVLPTGLGKTLIA---MMIAEYRLTKYGGKVLMLAPTK 62


>2hf9_A Probable hydrogenase nickel incorporation protein HYPB;
           alpha and beta protein; HET: GSP; 1.90A
           {Methanocaldococcus jannaschii} PDB: 2hf8_A* (A:)
          Length = 226

 Score = 28.6 bits (62), Expect = 2.8
 Identities = 23/217 (10%), Positives = 58/217 (26%), Gaps = 10/217 (4%)

Query: 433 DLAINLGKSIEGKPIIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMI 492
           D+     +  +    + +   +      G  GSGK++ I  +I +L  +   A     +I
Sbjct: 17  DILKANKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVI 76

Query: 493 DPKMLELSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKV 552
                E     G   +             ++   + ++      +  I            
Sbjct: 77  AKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNLDEIDLLFIE----------N 126

Query: 553 AQYHNTGKKFNRTVQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIES 612
                    F+          +     +T       M    +++    DL      DI+ 
Sbjct: 127 VGNLICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKK 186

Query: 613 AVQRLAQMARASGIHVIMATQRPSVDVITGTIKANFP 649
                 ++   + + ++        D +   I+ +  
Sbjct: 187 MENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK 223


>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA
           replication, viral replication, nucleotide-binding;
           2.10A {Kokobera virus} PDB: 2v6j_A (A:1-140,A:295-379)
          Length = 225

 Score = 28.5 bits (63), Expect = 3.1
 Identities = 6/42 (14%), Positives = 18/42 (42%), Gaps = 3/42 (7%)

Query: 456 HLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKML 497
             ++    G+GK+  +   +  L+      + R +++ P  +
Sbjct: 4   LTVLDLHPGAGKTRRV---LPQLVREAVKKRLRTVILAPTRV 42


>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin,
           fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A
           {Dictyostelium discoideum} (B:1-293)
          Length = 293

 Score = 28.5 bits (62), Expect = 3.2
 Identities = 25/195 (12%), Positives = 51/195 (26%), Gaps = 17/195 (8%)

Query: 447 IIADLARMPHLLIAGTTGSGKSVAINTMIL-SLLYR----MTPAQCRLIMIDPKMLELSV 501
           + +D   +P +++ G+  SGKS  +  ++    L R    +T     L +    + +   
Sbjct: 17  LGSDPLDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGS 76

Query: 502 YDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGF----NLKVAQYHN 557
                        +     + ++  +    +R    +K                V     
Sbjct: 77  QTQEWGEFLHKPNDMFYDFSEIREEIIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLV 136

Query: 558 TGKKFNRTVQTGFDRKTGEAIYETEHFDFQH-MPYIVVVIDEMADLMMVARKDIESAVQR 616
                 +           + I        +     IV V     DL         S   +
Sbjct: 137 DLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDL-------ANSDALQ 189

Query: 617 LAQMARASGIHVIMA 631
           LA+     G   I  
Sbjct: 190 LAKEVDPEGKRTIGV 204


>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC
           transporter, lipid flippase, hydrolase, inner membrane,
           lipid transport, membrane; 5.50A {Vibrio cholerae}
           (A:324-582)
          Length = 259

 Score = 28.4 bits (62), Expect = 3.2
 Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 2/39 (5%)

Query: 459 IAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKML 497
           + G +GSGKS   N  + +  Y +      L   D +  
Sbjct: 51  LVGRSGSGKSTIAN--LFTRFYDVDSGSICLDGHDVRDY 87


>3i4p_A Transcriptional regulator, ASNC family; PSI, structural
           genomics, protein structure initiative; 2.30A
           {Agrobacterium tumefaciens str} (A:1-53)
          Length = 53

 Score = 28.3 bits (64), Expect = 3.4
 Identities = 11/46 (23%), Positives = 25/46 (54%)

Query: 740 DDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKGVI 785
           D L ++ + I+  D+  +++ + +++G+        I+  EE GVI
Sbjct: 2   DRLDRKILRILQEDSTLAVADLAKKVGLSTTPCWRRIQKXEEDGVI 47


>2j28_9 Signal recognition particle 54; ribosome, protein/RNA
           complex; 8.0A {Escherichia coli} (9:92-330)
          Length = 239

 Score = 28.5 bits (62), Expect = 3.7
 Identities = 11/86 (12%), Positives = 25/86 (29%), Gaps = 1/86 (1%)

Query: 447 IIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIP 506
           +         +L+AG  G+GK+ ++  +   L  +    +  ++  D             
Sbjct: 1   LNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFLREKH-KKKVLVVSADVYRPAAIKQLETL 59

Query: 507 NLLTPVVTNPQKAVTVLKWLVCEMEE 532
                V   P         +V    +
Sbjct: 60  AEQVGVDFFPSDVGQKPVDIVNAALK 85


>2o0j_A Terminase, DNA packaging protein GP17; nucleotide-binding
           fold, hydrolase; HET: DNA ADP; 1.80A {Enterobacteria
           phage T4} PDB: 2o0h_A* 2o0k_A* (A:165-385)
          Length = 221

 Score = 28.3 bits (61), Expect = 3.8
 Identities = 2/45 (4%), Positives = 14/45 (31%)

Query: 447 IIADLARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIM 491
           ++  ++     +   +   GK+  +   +   +         ++ 
Sbjct: 7   MLKIMSSKRMTVCNLSRQLGKTTVVAIFLAHFVCFNKDKAVGILA 51


>3a00_A Guanylate kinase, GMP kinase; domain movement, dimerization,
           acetylation, ATP-binding, nucleotide-binding,
           phosphoprotein, transferase; 1.80A {Saccharomyces
           cerevisiae} PDB: 1ex6_A* 1ex7_A 1gky_A* 2zzz_A 2zzy_A
           (A:)
          Length = 186

 Score = 28.2 bits (61), Expect = 3.8
 Identities = 21/181 (11%), Positives = 44/181 (24%), Gaps = 19/181 (10%)

Query: 459 IAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPVVTNPQK 518
           I+G +G+GKS  +   + +                P+  E             V      
Sbjct: 6   ISGPSGTGKSTLLK-KLFAEYPDSFGFSVSSTTRTPRAGE-------------VNGKDYN 51

Query: 519 AVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDRKTGEAI 578
            V+V ++        + + ++            V Q   +GK     +     +      
Sbjct: 52  FVSVDEFKSMIKNNEFIEWAQFSGNYYGSTVASVKQVSKSGKTCILDIDMQGVKSVKAIP 111

Query: 579 YETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQRLAQMARASGIHVIMATQRPSVD 638
                F F   P +  +   +        + I   +           +          V 
Sbjct: 112 ELNARFLFIAPPSVEDLKKRLEGRGTETEESINKRLSAAQA-----ELAYAETGAHDKVI 166

Query: 639 V 639
           V
Sbjct: 167 V 167


>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D-
           structure; 3.30A {Thermus aquaticus} (D:135-193)
          Length = 59

 Score = 28.1 bits (62), Expect = 3.8
 Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 7/23 (30%)

Query: 492 IDPKMLELSVYDGIP----NLLT 510
           +DPK    +V DG+P     LLT
Sbjct: 1   LDPKG---AVLDGVPVEKRQLLT 20


>3b44_A GLPG; intramembrane protease, integral membrane protein,
           serine protease, DNA-binding, glycerol metabolism, inner
           membrane, transmembrane; HET: BNG; 1.70A {Escherichia
           coli} PDB: 2ic8_A* 2nrf_A 3b45_A* 2irv_A* 2o7l_A* (A:)
          Length = 180

 Score = 28.0 bits (62), Expect = 4.1
 Identities = 20/166 (12%), Positives = 43/166 (25%), Gaps = 15/166 (9%)

Query: 28  IVAGLILLCT-VFAITLALGTWDVYDPSFSYITLRSPKNFLGYGGAIFADVAIQFFGIAS 86
           +   +++ C  VF     LG  +V               F  Y            F +  
Sbjct: 6   VTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFARYFTHALM-----HFSLMH 60

Query: 87  VFFLPPPTMWALSLLFDKKIYCFSKRATAWLINILVSATFFASFSPSQSWPIQNGFGGII 146
           + F     +     L               +  I    + +     S  W    G  G++
Sbjct: 61  ILF----NLLWWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFG--GLSGVV 114

Query: 147 GDLIIRLPFLFFESYPRKLGILFFQMILFLAMSWLLIYSSSAIFQG 192
             L+    +++          ++ Q  L +     ++     +F  
Sbjct: 115 YALMG---YVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFGM 157


>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis,
           oxygen-evolving, tetra- manganese, membrane; HET: CL1
           PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus
           elongatus} (U:48-134)
          Length = 87

 Score = 28.1 bits (63), Expect = 4.3
 Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 4/34 (11%)

Query: 745 QAVDIVLRDNKASISYIQRRLGIGYNRAASIIEN 778
           + +D+    N  +I+   +  G+    A  I++N
Sbjct: 6   EKIDL----NNTNIAAFIQYRGLYPTLAKLIVKN 35


>1ji0_A ABC transporter; ATP binding protein, structural genomics,
           PSI, protein structure initiative, midwest center for
           structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga
           maritima} (A:)
          Length = 240

 Score = 28.0 bits (62), Expect = 4.4
 Identities = 26/177 (14%), Positives = 55/177 (31%), Gaps = 16/177 (9%)

Query: 459 IAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPVVTNPQK 518
           + G  G+GK+  ++   ++ L R    +      D       V +     L P       
Sbjct: 37  LIGANGAGKTTTLS--AIAGLVRAQKGKIIFNGQDITNKPAHVINRXGIALVPEGRRIFP 94

Query: 519 AVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDRKTGEAI 578
            +TV + L      R  K      R+++       +     K+   T+  G  +      
Sbjct: 95  ELTVYENLXXGAYNRKDKEGIK--RDLEWIFSLFPRLKERLKQLGGTLSGGEQQXLAIGR 152

Query: 579 YETEHFDFQHMPYIVVVIDE-MADLMMVARKDIESAVQRLAQMARASGIHVIMATQR 634
                         ++  DE    L  +   ++   +Q++ Q     G  +++  Q 
Sbjct: 153 ALXSRPK-------LLXXDEPSLGLAPILVSEVFEVIQKINQ----EGTTILLVEQN 198


>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein;
           2.00A {Acidianus ambivalens} (F:92-284)
          Length = 193

 Score = 28.1 bits (61), Expect = 4.5
 Identities = 16/171 (9%), Positives = 42/171 (24%), Gaps = 15/171 (8%)

Query: 457 LLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLE------LSVYDGIPNLLT 510
           +++ G  G+GK+    T    L Y       ++ ++   +        L        +  
Sbjct: 10  IMLVGVQGTGKT----TTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPV 65

Query: 511 PVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFN-----RT 565
                 +  V + K  V +      ++  +      G+  + A        +        
Sbjct: 66  YGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEV 125

Query: 566 VQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQR 616
                     +A      F+       +++                +A   
Sbjct: 126 TLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGALSAVAATGA 176


>2gxg_A 146AA long hypothetical transcriptional regulator; winged
           helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A
           3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A (A:1-121)
          Length = 121

 Score = 27.6 bits (61), Expect = 5.4
 Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 750 VLRDNKASISYIQRRLGIGYNRAASIIENMEEKG-VIGPASSTGKREILIS 799
              D   +++Y+  R  +  +   + ++ +EE G V+       +R+ILI 
Sbjct: 45  ATSDGPKTMAYLANRYFVTQSAITASVDKLEEMGLVVRVRDREDRRKILIE 95


>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M
           domain, RNA-binding, signal sequence-binding,
           helix-turn-helix, protein targeting; 3.20A {Thermus
           aquaticus} (A:93-282)
          Length = 190

 Score = 27.8 bits (60), Expect = 5.5
 Identities = 25/167 (14%), Positives = 47/167 (28%), Gaps = 9/167 (5%)

Query: 457 LLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPK-------MLELSVYDGIPNLL 509
             + G  GSGK+       L+L Y+    +  L+  D +       +  L    G+P L 
Sbjct: 9   WFLVGLQGSGKTTTAAK--LALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLE 66

Query: 510 TPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTG 569
                +P+     ++            +   G   ID   +            +  +   
Sbjct: 67  VMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVL 126

Query: 570 FDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQR 616
                 EA+     FD +     +V+     D    A         +
Sbjct: 127 DAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAALSARHVTGK 173


>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase,
           hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus dsm
           4304} PDB: 2oaq_1 (1:261-446)
          Length = 186

 Score = 27.5 bits (60), Expect = 5.5
 Identities = 6/17 (35%), Positives = 11/17 (64%)

Query: 458 LIAGTTGSGKSVAINTM 474
           ++ G T SGK+  +N +
Sbjct: 4   IVVGETASGKTTTLNAI 20


>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A
           {Saccharomyces cerevisiae} (A:)
          Length = 203

 Score = 27.7 bits (60), Expect = 5.8
 Identities = 20/200 (10%), Positives = 57/200 (28%), Gaps = 10/200 (5%)

Query: 453 RMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPV 512
           ++  + + G  G+GK     T    L+   +        +       +       +   +
Sbjct: 14  QVSVIFVLGGPGAGKG----TQCEKLVKDYSFVHLSAGDLLRAEQGRAGSQYGELIKNCI 69

Query: 513 VTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDR 572
                    +   L+        K +K     IDGF  K+ Q  +  +    +    F  
Sbjct: 70  KEGQIVPQEITLALLRNAISDNVKANKHKFL-IDGFPRKMDQAISFERDIVESKFILFFD 128

Query: 573 KTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQRLAQMARASGIHVIMAT 632
              + + E      +        I+ +       ++     ++     ++   +  +   
Sbjct: 129 CPEDIMLERLLERGKTSGRSDDNIESIKKRFNTFKETSMPVIEYFETKSK---VVRVRCD 185

Query: 633 QRPSVDVITGTIKANFPTRI 652
           +  SV+ +   ++      +
Sbjct: 186 R--SVEDVYKDVQDAIRDSL 203


>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB;
           ABC-transporter, transport protein; HET: ADP; 1.60A
           {Escherichia coli} (A:)
          Length = 247

 Score = 27.6 bits (60), Expect = 6.0
 Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 2/42 (4%)

Query: 459 IAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELS 500
           I G +GSGKS      ++   Y     Q  +   D  + + +
Sbjct: 40  IVGRSGSGKSTLTK--LIQRFYIPENGQVLIDGHDLALADPN 79


>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken
           structural genomics/proteomics initiative, RSGI,
           structural genomics; 1.70A {Thermus thermophilus HB8}
           PDB: 2d2f_A* (A:)
          Length = 250

 Score = 27.4 bits (60), Expect = 6.2
 Identities = 33/211 (15%), Positives = 69/211 (32%), Gaps = 23/211 (10%)

Query: 437 NLGKSIEGKPIIAD----LARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMI 492
           +L  SI+G+ I+      + +     + G  G+GKS      IL+     T  +  +++ 
Sbjct: 8   DLWASIDGETILKGVNLVVPKGEVHALMGPNGAGKSTLGK--ILAGDPEYTVERGEILLD 65

Query: 493 DPKMLELSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKV 552
              +LELS  +     L      P +   V       +  + +   ++GV        K 
Sbjct: 66  GENILELSPDERARKGLFLAFQYPVEVPGVTIANFLRLALQAKLGREVGVAEFWTKVKKA 125

Query: 553 AQYHNTGKKFNRTVQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMM----VARK 608
            +  +  + +         R   E     E    +    I+ ++       +     +  
Sbjct: 126 LELLDWDESY-------LSRYLNEGFSGGE----KKRNEILQLLVLEPTYAVLDETDSGL 174

Query: 609 DIES--AVQRLAQMARASGIHVIMATQRPSV 637
           DI++   V R     R      ++ T    +
Sbjct: 175 DIDALKVVARGVNAMRGPNFGALVITHYQRI 205


>1nij_A Hypothetical protein YJIA; structural genomics, P-loop
           protein, GTP binding, structure 2 function project, S2F,
           unknown function; 2.00A {Escherichia coli} (A:1-204)
          Length = 204

 Score = 27.6 bits (60), Expect = 6.9
 Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 4/44 (9%)

Query: 451 LARMPHLLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDP 494
           +  +   L+ G  G+GK+    T++  +L      +  +I  + 
Sbjct: 1   MNPIAVTLLTGFLGAGKT----TLLRHILNEQHGYKIAVIENEF 40


>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette,
           hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}
           (A:1-249)
          Length = 249

 Score = 27.4 bits (61), Expect = 7.0
 Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 6/51 (11%)

Query: 437 NLGKSIEGKPIIAD----LARMPHLLIAGTTGSGKSVAINTMILSLLYRMT 483
            +G+  +GK I+      +A+    ++ G  G+GK+  +N  IL+     T
Sbjct: 26  QIGRXKQGKTILKKISWQIAKGDKWILYGLNGAGKTTLLN--ILNAYEPAT 74


>2p67_A LAO/AO transport system kinase; ARGK, structural genomics,
           PSI-2, protein structure initiative; 1.80A {Escherichia
           coli K12} (A:1-265)
          Length = 265

 Score = 27.4 bits (59), Expect = 7.1
 Identities = 29/236 (12%), Positives = 60/236 (25%), Gaps = 11/236 (4%)

Query: 404 IGIELPNDIRETV---MLRDLIVSRVFEKNQCDLAINLGKSIEGKPIIADLARMPHLLIA 460
           I      +    +       L  +    +++      L   +    I+        L + 
Sbjct: 4   INEATLAESIRRLRQGERATLAQAMTLVESRHPRHQALSTQLL-DAIMPYCGNTLRLGVT 62

Query: 461 GTTGSGKSVAINTMILSLLYRMTPAQCRLIM----IDPKMLELSVYDGIPNLLTPVVTNP 516
           GT G+GKS  +    + L+          +     +    +                   
Sbjct: 63  GTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIR 122

Query: 517 QK-AVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDRKTG 575
              +   L        E        G   +    + V Q      +      +      G
Sbjct: 123 PVPSSGHLGGASQRARELMLLCEAAGYDVVIVETVGVGQSETEVARMVDCFISLQIAGGG 182

Query: 576 EAIYETEHFDFQHMPYIVVVIDEMADLMMVA--RKDIESAVQRLAQMARASGIHVI 629
           + +   +    +    IV+  D+  +   VA  R   ESA+  L +        V+
Sbjct: 183 DDLQGIKKGLMEVADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVL 238


>2duy_A Competence protein comea-related protein;
           helix-hairpin-helix, structural genomics, NPPSFA; 1.75A
           {Thermus thermophilus HB8} (A:)
          Length = 75

 Score = 27.4 bits (61), Expect = 7.1
 Identities = 10/45 (22%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 733 SENSSVADDLYKQAVDIVLRDNKASISYIQRRLGIGYNRAASIIE 777
           +          +  V +    N+AS+  +    GIG   A  I+E
Sbjct: 5   ALGKVAPLPQAQTPVSL----NEASLEELXALPGIGPVLARRIVE 45


>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP;
           2.10A {Mus musculus} (A:)
          Length = 198

 Score = 27.4 bits (59), Expect = 7.2
 Identities = 12/181 (6%), Positives = 40/181 (22%), Gaps = 11/181 (6%)

Query: 457 LLIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPVVTNP 516
           ++++G +G+GKS      +L  L++   +      +          +        V    
Sbjct: 7   VVLSGPSGAGKST-----LLKKLFQEHSSIFGFS-VSHTTRNPRPGEEDGKDYYFVTREM 60

Query: 517 QKAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTVQTGFDRKTGE 576
            +        +   E                  +      +   +  R+++         
Sbjct: 61  MQRDIAAGDFIEHAEFSGNLYGTSKEAVRAVQAMNRICVLDVDLQGVRSIKKTDLC---- 116

Query: 577 AIYETEHFDFQHMPYIVVVIDEMADLMMVARKDIESAVQRLAQMARASGIHVIMATQRPS 636
                             +     +      K + +A   +          +++      
Sbjct: 117 -PIYIFVQPPSLDVLEQRLRLRNTETEESLAKRLAAARTDMESSKEPGLFDLVIINDDLD 175

Query: 637 V 637
            
Sbjct: 176 K 176


>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding
           protein LOLD; structural genomics, NPPSFA; 1.70A
           {Aquifex aeolicus VF5} PDB: 2pcl_A (A:)
          Length = 224

 Score = 27.2 bits (60), Expect = 7.5
 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 6/51 (11%)

Query: 437 NLGKSIEGKPIIAD----LARMPHLLIAGTTGSGKSVAINTMILSLLYRMT 483
           N+ K I G  I+      + +   + I G +GSGKS  +   IL LL   T
Sbjct: 9   NIKKVIRGYEILKGISLSVKKGEFVSIIGASGSGKSTLLY--ILGLLDAPT 57


>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
           protein, P-type ATPase, active transport, cryo-electron
           microscopy; 8.00A {Neurospora crassa}
           (A:17-35,A:164-175,A:274-372,A:671-879)
          Length = 339

 Score = 27.4 bits (60), Expect = 7.6
 Identities = 21/114 (18%), Positives = 33/114 (28%), Gaps = 7/114 (6%)

Query: 72  AIFADVAIQFFGIASVFFLPPPTMWALSLLFDKKIYCFSKRA--TAWLINILVSATFFAS 129
           AIFADVA       +  +   P  W L  L+   +      A  T   +  + +      
Sbjct: 186 AIFADVATLAIAYDNAPYSQTPVKWNLPKLWGMSVLLGVVLAVGTWITVTTMYAQGENGG 245

Query: 130 FSPSQS-----WPIQNGFGGIIGDLIIRLPFLFFESYPRKLGILFFQMILFLAM 178
              +         +Q          I R    F+ S P         ++  LA 
Sbjct: 246 IVQNFGNMDEVLFLQISLTENWLIFITRANGPFWSSIPSWQLSGAIFLVDILAT 299


>3dmp_A Uracil phosphoribosyltransferase; structural genomics,
           seattle structural genomics center for infectious
           disease, ssgcid; 2.60A {Burkholderia pseudomallei} (A:)
          Length = 217

 Score = 27.1 bits (59), Expect = 7.6
 Identities = 21/165 (12%), Positives = 42/165 (25%), Gaps = 23/165 (13%)

Query: 488 RLIMIDPKMLELSVYDGIPNLLTPVVTNPQKAVTVLKWLVCEMEERYQKMSKIGVRNIDG 547
            + ++         Y+   NL            T L  +   +    +      +R   G
Sbjct: 42  EITLLMG-------YEITRNLPITTKR----VETPLVEIDAPVIAGKKLAIVPVLRAGVG 90

Query: 548 FNLKVAQYHNTGKKFNRTVQTGFDRKTGEAIYETEHFDFQHMPYIVVVIDEMADLMMVAR 607
            +  + +         R    G  R       E           I ++ D M      A 
Sbjct: 91  MSDGLLELIP----SARVGHIGVYRADDHRPVEYLVRLPDLEDRIFILCDPMVATGYSAA 146

Query: 608 KDIESAVQRLAQMARASGIHVIMA--------TQRPSVDVITGTI 644
             I+   +R     R   + ++ A           P V +   ++
Sbjct: 147 HAIDVLKRRGVPGERLMFLALVAAPEGVQVFQDAHPDVKLYVASL 191


>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF
           domain, transcription, RNA binding protein; 2.27A
           {Pseudomonas aeruginosa} (A:499-568)
          Length = 70

 Score = 27.0 bits (60), Expect = 8.8
 Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 4/37 (10%)

Query: 747 VDIVLRDNKASISYIQRRLGIGYNRAASIIENMEEKG 783
           VD+    N AS + + R  G+    A +I+ + +  G
Sbjct: 2   VDV----NTASAALLARISGLNSTLAQNIVAHRDANG 34


>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding
           domain, TK1, UU-TK, transferase; HET: THM; 2.00A
           {Ureaplasma parvum} (A:1-155)
          Length = 155

 Score = 27.1 bits (59), Expect = 9.0
 Identities = 15/109 (13%), Positives = 35/109 (32%), Gaps = 5/109 (4%)

Query: 458 LIAGTTGSGKSVAINTMILSLLYRMTPAQCRLIMIDPKMLELSVYDGIPNLLTPVVTNPQ 517
            I G   +GK+  +   +  L Y           ID + +         +L +  V +  
Sbjct: 16  FITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAP 75

Query: 518 KAVTVLKWLVCEMEERYQKMSKIGVRNIDGFNLKVAQYHNTGKKFNRTV 566
           + +  +            +   IG+  +  F+ ++ +  N   +    V
Sbjct: 76  EILNYIMSNSFND-----ETKVIGIDEVQFFDDRICEVANILAENGFVV 119


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.322    0.137    0.398 

Gapped
Lambda     K      H
   0.267   0.0771    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 5,985,084
Number of extensions: 276439
Number of successful extensions: 1080
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1072
Number of HSP's successfully gapped: 84
Length of query: 806
Length of database: 4,956,049
Length adjustment: 96
Effective length of query: 710
Effective length of database: 1,710,769
Effective search space: 1214645990
Effective search space used: 1214645990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.0 bits)