RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780353|ref|YP_003064766.1| DNA topoisomerase IV subunit A
[Candidatus Liberibacter asiaticus str. psy62]
         (753 letters)



>gnl|CDD|180129 PRK05561, PRK05561, DNA topoisomerase IV subunit A; Validated.
          Length = 742

 Score = 1098 bits (2842), Expect = 0.0
 Identities = 348/742 (46%), Positives = 499/742 (67%), Gaps = 11/742 (1%)

Query: 14  EENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK 73
            E ++ + L   LEERYL YA+  I +RA+PD+RDG KPV RRI++AMSE+GL   A FK
Sbjct: 7   LEGIEDLPLEEFLEERYLRYAMYVIMDRALPDVRDGLKPVQRRILYAMSELGLTPDAKFK 66

Query: 74  KSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTE 133
           KSAR+VG+V+GK HPHGD S+YD++VR+AQ F  RYPL+ GQGNFG+IDGD AAA RYTE
Sbjct: 67  KSARVVGDVLGKYHPHGDSSIYDAMVRMAQDFSYRYPLVDGQGNFGSIDGDPAAAMRYTE 126

Query: 134 ARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPS 193
           AR++ +AEL+L+ +DE  VDF   ++    EP V P++FPNLL NG +GIAVGMAT IP 
Sbjct: 127 ARLSPIAELLLEEIDEGTVDFVPNFDGTLKEPTVLPARFPNLLLNGATGIAVGMATDIPP 186

Query: 194 HNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVR 253
           HN++E+ +AA+ LIDNP+ ++E+L+E++ GPDFPTGG I+  R+ I ++Y  GRG  RVR
Sbjct: 187 HNLREVIDAAIHLIDNPDATLEELMEFVPGPDFPTGGEIITGRDGIRKAYETGRGSIRVR 246

Query: 254 ARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED--VRI 311
           ARW +E++  G W IV+TE+PYQV K++LIE+IAEL+ AK++P + D+RDES  +  VRI
Sbjct: 247 ARWEIEDLAGGRWQIVITELPYQVSKAKLIEQIAELMNAKKLPGIADVRDESDRENPVRI 306

Query: 312 VLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREV 371
           V+ PK+  +DP+ LM  +F  +D+E+ + +NMN + +   P+V  L  IL EWL HRREV
Sbjct: 307 VIEPKSNRVDPEALMNHLFATTDLESSYRVNMNAIGLDGRPRVKGLKEILSEWLDHRREV 366

Query: 372 LFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAI 431
           + RRS FR+  +++R+ IL+GLLIA+LNIDE+I IIR  D+PK  +++RF L+E Q +AI
Sbjct: 367 VTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDEPKANLMARFDLSEIQAEAI 426

Query: 432 LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTD 491
           L LRLR L KLEE +I+ E D L  E  +++++L S ++    I  E++   + F     
Sbjct: 427 LELRLRRLAKLEEIEIRKEQDELRKEIAELEAILASERKLRKLIKKELKADAKKFG---- 482

Query: 492 LGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSL 551
              RRT   E   A  A  ++A+I  EP+TVV+S +GW+R  K HS+D S L FKEGDSL
Sbjct: 483 -DPRRTPIEEAEEA-IAIDEEALIPDEPVTVVLSKKGWVRRAKGHSIDASGLSFKEGDSL 540

Query: 552 KIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDST 611
             A  A TTD++LL ++ G+ Y+LP   L S RG GE +  L+DL   ++IV    +D  
Sbjct: 541 LFAFEARTTDKLLLFTSTGRVYSLPVHELPSARGDGEPLTGLVDLAPGEEIVHVLAFDPD 600

Query: 612 CKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVT-GDHVAVVGENRKL 670
            KLL+ SS G  F+V   +++A TR GK  + +   +++   V V   DH+A +  N +L
Sbjct: 601 QKLLLASSAGYGFVVTLEDLVARTRAGKAVINLKDGDEVLPPVPVEDDDHLAAITSNGRL 660

Query: 671 LIFSIDQIPEMSRGKGVRLQSYK--DGGISDVICFKICEGLTWIDSAGRSYNRSENDLLG 728
           L+F + ++PE+ +GKGV+L +    D G+ D+      +GL  + +  R      ++L  
Sbjct: 661 LVFPLSELPELGKGKGVKLINLPKDDDGLVDLRVLNPEDGLVLLTAGKRKLKLKPSELEK 720

Query: 729 WLGKRGGVGSLVPKGFPRSGKF 750
           + GKR   G L+P+G  R  +F
Sbjct: 721 YRGKRARRGRLLPRGLKRVPRF 742


>gnl|CDD|130134 TIGR01062, parC_Gneg, DNA topoisomerase IV, A subunit,
           proteobacterial.  Operationally, topoisomerase IV is a
           type II topoisomerase required for the decatenation of
           chromosome segregation. Not every bacterium has both a
           topo II and a topo IV. The topo IV families of the
           Gram-positive bacteria and the Gram-negative bacteria
           appear not to represent a single clade among the type II
           topoisomerases, and are represented by separate models
           for this reason.
          Length = 735

 Score =  747 bits (1929), Expect = 0.0
 Identities = 297/746 (39%), Positives = 461/746 (61%), Gaps = 24/746 (3%)

Query: 17  VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSA 76
           ++ + L    EE YL Y++  I +RA+P + DG KPV RRI++AMSE+GL+  A +KKSA
Sbjct: 1   IENIDLGNFTEEAYLNYSMYVIMDRALPFIGDGLKPVQRRIVYAMSELGLNANAKYKKSA 60

Query: 77  RIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDG-DSAAAYRYTEAR 135
           R VG+V+GK HPHGD + Y+++V +AQPF  RYPL+ GQGN+G  D   S AA RYTE+R
Sbjct: 61  RTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTESR 120

Query: 136 MTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHN 195
           +++++EL+L+ + +  VDFR  ++    EPV+ P++ PN+L NGT+GIAVGMAT IP HN
Sbjct: 121 LSKISELLLEELGQGTVDFRPNFDGTLLEPVILPARLPNILLNGTTGIAVGMATDIPPHN 180

Query: 196 VQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRAR 255
           + E+ +AAL LIDNP+  ++ +L  + GPDFPT   I++  E I + Y  GRG FR+RAR
Sbjct: 181 LHELADAALYLIDNPKAGLDDILNIVQGPDFPTEAEIIDKAEEIRKIYETGRGSFRMRAR 240

Query: 256 WCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED--VRIVL 313
           W  E+       IV++ +P+Q+ KS++IE+IA  +  K++P++ DIRDES  +  +R+V+
Sbjct: 241 WKKEDGQ-----IVISALPHQISKSKVIEQIAIQMKDKKLPMISDIRDESDHENPIRVVI 295

Query: 314 FPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLF 373
            P++  +DPD++ME +F  +D+E  + LNMN++ +  VP V  L  IL+EWL  RR  + 
Sbjct: 296 VPRSNRVDPDIVMEHLFATTDLEKSYRLNMNMIGLDNVPAVKNLLEILQEWLVFRRNTVI 355

Query: 374 RRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILN 433
           RR ++R+  + +R+ IL+GL IA+LNIDE+I IIR ED+PK +++ RF L+  Q +AILN
Sbjct: 356 RRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREEDEPKTILMERFKLSAIQAEAILN 415

Query: 434 LRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLG 493
           LRLR L KLEE+ I  E   L  E+  ++ +L S ++    +  EI+     +  +    
Sbjct: 416 LRLRHLAKLEEHAIIDEQSELEKERAILEKILKSERELNQLVKKEIQADATKYGLA---- 471

Query: 494 RRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKI 553
            RR++  E   A K   +  MI KEP+T+++S  GW+RS K H +DLS L +K GDS K 
Sbjct: 472 -RRSSLEEREEA-KQVSEIDMIPKEPVTIILSKMGWVRSAKGHDIDLSTLKYKAGDSEKA 529

Query: 554 ALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCK 613
            +   +  +++ + + G++Y L   NL S RG GE +   + L     I    +Y     
Sbjct: 530 IIEGKSNQKVVFIDSTGRSYALDPDNLPSARGQGEPLTGKLLLPIGATITNILMYSPNQL 589

Query: 614 LLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKM--KLVVKVTGDHVAVVGENRKLL 671
           LL+ S  G  F+   +++IA  + GK  + +     +   L V    D +A + E  ++L
Sbjct: 590 LLMASDAGYGFLCNFNDLIARNKAGKALINLPENASVIAPLPVNGDSDMIAAITEAGRML 649

Query: 672 IFSIDQIPEMSRGKGVRLQSYK-------DGGISDVICFKICEGLTWIDSAGRSYNRSEN 724
           +F ID +PE+S+GKG +L           + G+ D+  F   +GL+W +   R       
Sbjct: 650 VFPIDDLPELSKGKGNKLIRIPSANAKRGEDGLLDLKIFNKQDGLSW-NDGKRKIQLEPE 708

Query: 725 DLLGWLGKRGGVGSLVPKGFPRSGKF 750
           +L  +LG+RG  G+ +P+G P++ +F
Sbjct: 709 ELQKFLGERGRFGTTLPRGLPKNNRF 734


>gnl|CDD|180128 PRK05560, PRK05560, DNA gyrase subunit A; Validated.
          Length = 805

 Score =  620 bits (1603), Expect = e-178
 Identities = 288/707 (40%), Positives = 423/707 (59%), Gaps = 57/707 (8%)

Query: 14  EENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK 73
            + +  V++   ++  YL YA+S I  RA+PD+RDG KPVHRRI++AM+E+G      +K
Sbjct: 2   GDRIIPVNIEDEMKRSYLDYAMSVIVGRALPDVRDGLKPVHRRILYAMNELGNTPDKPYK 61

Query: 74  KSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTE 133
           KSARIVG+V+GK HPHGD +VYD+LVR+AQ F  RYPL+ GQGNFG+IDGD AAA RYTE
Sbjct: 62  KSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTE 121

Query: 134 ARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPS 193
           ARM+++A  +L  +D++ VDF   Y+  + EP V P++FPNLL NG+SGIAVGMAT+IP 
Sbjct: 122 ARMSKIAHELLADIDKETVDFVPNYDGSEQEPTVLPARFPNLLVNGSSGIAVGMATNIPP 181

Query: 194 HNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVR 253
           HN+ E+ +A LALIDNP+I+IE+L+E I GPDFPTGGII+  R  I E+YR GRG   +R
Sbjct: 182 HNLGEVIDACLALIDNPDITIEELMEIIPGPDFPTGGIIL-GRSGIREAYRTGRGSIVMR 240

Query: 254 ARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED-VRIV 312
           A+  +EE+  G   I+VTEIPYQV K+RLIEKIAEL+  K+I  + D+RDES  D +RIV
Sbjct: 241 AKAEIEEIK-GREAIIVTEIPYQVNKARLIEKIAELVKEKKIEGISDLRDESDRDGMRIV 299

Query: 313 LFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVL 372
           +  K R   P++++ +++  + ++T F +NM  L  G+ P+++ L  IL+ +L HR+EV+
Sbjct: 300 IELK-RDAVPEVVLNNLYKHTQLQTSFGINMLALVDGQ-PKLLNLKEILEAFLEHRKEVI 357

Query: 373 FRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKP---KPVMVSRFSLTENQVD 429
            RR+ F ++  + R  IL+GLLIA  NIDE+IA+IR    P   K  ++ RF L+E Q  
Sbjct: 358 TRRTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPTPAEAKEGLMERFGLSEIQAQ 417

Query: 430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489
           AIL++RL+ L  LE  +I+ E   LLA    +  +L S ++    I  E+ E+KE F   
Sbjct: 418 AILDMRLQRLTGLERDKIEDEYKELLALIADLKDILASPERLLEIIKEELLEIKEKF--G 475

Query: 490 TDLGRRRTTFC----EVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDL----- 540
                RRT       ++   D       +I +E + V +++ G+I   K   +D      
Sbjct: 476 DP---RRTEIIEGEGDIDDED-------LIPEEDVVVTLTHGGYI---KRTPLDEYRAQR 522

Query: 541 ------SALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNL-LSGRG-HGEAIQL 592
                 S    KE D ++    A T D +L  +  G+ Y L    +  + R   G  I  
Sbjct: 523 RGGKGVSGAKTKEDDFVEHLFVASTHDTLLFFTNRGRVYRLKVYEIPEASRTARGRPIVN 582

Query: 593 LIDLNHNQDIVTAFV----YDSTCKLLVVSSKGNAFIVEESEI--IANTRK-GKTFLKVS 645
           L+ L   + I TA +    +D    L   +  G    V+++ +   +N R  G   + + 
Sbjct: 583 LLPLEPGEKI-TAILPVREFDDDKYLFFATKNG---TVKKTSLSEFSNIRSNGIIAINL- 637

Query: 646 SEEKMKLV-VKVT--GDHVAVVGENRKLLIFSIDQIPEMSRG-KGVR 688
            +E  +L+ V++T   D + +  +N K + F    +  M R  +GVR
Sbjct: 638 -DEGDELIGVRLTDGDDDILLATKNGKAIRFPESDVRPMGRTARGVR 683


>gnl|CDD|162183 TIGR01063, gyrA, DNA gyrase, A subunit.  This model describes the
           common type II DNA topoisomerase (DNA gyrase). Two
           apparently independently arising families, one in the
           Proteobacteria and one in Gram-positive lineages, are
           both designated toposisomerase IV.
          Length = 800

 Score =  598 bits (1545), Expect = e-171
 Identities = 283/698 (40%), Positives = 419/698 (60%), Gaps = 34/698 (4%)

Query: 17  VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSA 76
           +  V++   ++  YL YA+S I  RA+PD+RDG KPVHRRI++AM E+GL     +KKSA
Sbjct: 1   IVPVNIEEEMKRSYLDYAMSVIVSRALPDVRDGLKPVHRRILYAMYELGLTPDKPYKKSA 60

Query: 77  RIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARM 136
           RIVG+V+GK HPHGD ++YD+LVR+AQ F  RYPL+ GQGNFG+IDGD  AA RYTEAR+
Sbjct: 61  RIVGDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARL 120

Query: 137 TQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNV 196
           T++AE +L+ +D++ VDF   Y+  + EP V PS+FPNLL NG+SGIAVGMAT+IP HN+
Sbjct: 121 TKIAEELLRDIDKETVDFVPNYDGSEQEPTVLPSRFPNLLVNGSSGIAVGMATNIPPHNL 180

Query: 197 QEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARW 256
            EI +A LA IDNP+ISI++LLE I GPDFPTGGII+  R  I  +Y  GRG   +RAR 
Sbjct: 181 GEIIDALLAYIDNPDISIQELLEVIKGPDFPTGGIIL-GRSGIRSAYETGRGSIVIRARA 239

Query: 257 CVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED-VRIVLFP 315
            +EE  +G   I+VTEIPYQV K+RLIEKIAEL+  K+I  + DIRDES  + +RIV+  
Sbjct: 240 EIEEDSKGREAIIVTEIPYQVNKARLIEKIAELVREKKIEGISDIRDESDREGIRIVIEL 299

Query: 316 KNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRR 375
           K R    ++++ +++  + ++  F +NM  L  G  P+V+ L  +L+ ++ HR++V+ RR
Sbjct: 300 K-RDAVAEVVLNNLYKQTQLQVSFGINMLALVKGL-PKVLNLKELLEAFVEHRKDVITRR 357

Query: 376 SSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIR---NEDKPKPVMVSRFSLTENQVDAIL 432
           + F ++  + R  IL+GLLIA  NIDE+IA+IR   N ++ K  +V RFSL+E Q  AIL
Sbjct: 358 TIFELRKAEERAHILEGLLIALDNIDEVIALIRASQNTEEAKTRLVERFSLSEIQAQAIL 417

Query: 433 NLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDL 492
           ++RL+ L  LE  +++ E   LL     ++ +L S ++    I  E+ E+KE F      
Sbjct: 418 DMRLQRLTGLEREKLQEEYKELLELIADLEDILASEERVLEIIREELEEIKEQFGDP--- 474

Query: 493 GRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWI--------RSLKSHSVDLSALH 544
             RRT    V    +    + +I +E + V +S+ G++        R  K     +S   
Sbjct: 475 --RRTEI--VYDESEDIDIEDLIARENVVVTLSHNGYVKRVPVSAYRLQKRGGKGVSGAD 530

Query: 545 FKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNL-LSGRG-HGEAIQLLIDLNHNQDI 602
            K+ D ++  L A T D +L  +  GK Y L    +  + R   G+ I  L+ L  ++ I
Sbjct: 531 MKDDDFIEQLLVASTHDYLLFFTNRGKVYWLKVYQIPEASRTAKGKPIVNLLPLQPDERI 590

Query: 603 VTAFV----YDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG 658
            TA +    +D    L   +  G       +E       G   +K+   +++  V   +G
Sbjct: 591 -TAILSVKEFDDGLYLFFATKNGVVKKTSLTEFSNIRSNGIIAIKLDDGDELISVRLTSG 649

Query: 659 -DHVAVVGENRKLLIFSIDQIPEMSRG----KGVRLQS 691
            D V +  +N K + F  + +  M R     +G++L++
Sbjct: 650 DDEVMLGSKNGKAVRFPEEDVRPMGRAARGVRGIKLKN 687


>gnl|CDD|128711 smart00434, TOP4c, DNA Topoisomerase IV.  Bacterial DNA
           topoisomerase IV, GyrA, ParC.
          Length = 445

 Score =  513 bits (1323), Expect = e-146
 Identities = 208/462 (45%), Positives = 292/462 (63%), Gaps = 26/462 (5%)

Query: 20  VSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIV 79
           + +   + + YL Y++S I  RAIPD+RDG KPV RRI++AM + GL       KSAR V
Sbjct: 1   IDIEDFINKEYLDYSMSVINGRAIPDVRDGLKPVQRRILYAMFKRGLTPDEPKVKSARGV 60

Query: 80  GEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQ 138
           G+V+GK HPHGD S+YD++VR+AQ F   YPL+ GQGNFG+  DGD AAA RYTE R++ 
Sbjct: 61  GDVMGKYHPHGDSSLYDAIVRMAQDFSNNYPLLDGQGNFGSRLDGDDAAAMRYTETRLSP 120

Query: 139 VAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQE 198
           +A  +L  +D+D VDF   Y+ ++ EP V P   PNLL NG+SGIAVGMAT+IP HN++E
Sbjct: 121 LARELLPDIDKDTVDFVPNYDGQEIEPTVLPPIIPNLLVNGSSGIAVGMATNIPPHNLRE 180

Query: 199 ICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCV 258
           + +A   LIDNPE SI++L+    GPDFPTGG I+            G G + VR +  +
Sbjct: 181 VIDAVRRLIDNPEASIDELMMIPWGPDFPTGGEII------------GPGSYVVRGKIEI 228

Query: 259 EEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDES--AEDVRIVLFPK 316
           E+   G   IV+TE+PYQV K++LIEKIAEL+  K+I  + D+RDES     VRIV+  K
Sbjct: 229 ED---GRNTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRDESHDRTGVRIVIELK 285

Query: 317 NRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRS 376
            R    ++++  ++ L+ +++ F +NM  L     P+   L  ILKE+L HR EV  RR 
Sbjct: 286 -RGAMAEVVLNGLYKLTKLQSTFSINMLALFDNGKPKKYNLKEILKEFLDHRLEVYTRRK 344

Query: 377 SFRMQAIDR-RVEILKGLLIAYLNIDEIIAIIRNEDKP----KPVMVSRFSLTENQVDAI 431
            + +  ++  R+ IL+GL IA   IDEII +IR+        K +++ RF L+E Q DAI
Sbjct: 345 EYLLGKLEAERLHILEGLFIALSIIDEIIVLIRSSKDLAKEAKELLMERFELSEEQADAI 404

Query: 432 LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWN 473
           L++RLR L KLE  +++ EL  L  E E ++ +L    + W 
Sbjct: 405 LDMRLRRLTKLEVEKLEKELKELEKEIEDLEKIL--ASELWL 444


>gnl|CDD|162182 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
           Gram-positive.  Operationally, topoisomerase IV is a
           type II topoisomerase required for the decatenation of
           chromosome segregation. Not every bacterium has both a
           topo II and a topo IV. The topo IV families of the
           Gram-positive bacteria and the Gram-negative bacteria
           appear not to represent a single clade among the type II
           topoisomerases, and are represented by separate models
           for this reason.
          Length = 738

 Score =  424 bits (1092), Expect = e-119
 Identities = 237/719 (32%), Positives = 398/719 (55%), Gaps = 30/719 (4%)

Query: 28  ERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLH 87
           E +  YA   I++RA+PD+RDG KPV RRI++AM + G  F   +KKSAR VGE++GK H
Sbjct: 12  ESFGKYAKYIIQDRALPDIRDGLKPVQRRILYAMFQDGNTFDKPYKKSARTVGEIMGKYH 71

Query: 88  PHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGV 147
           PHGD S+YD++VR++Q +   + L+   GN G+IDGD+AAA RYTEAR++ +A  +L+ +
Sbjct: 72  PHGDSSIYDAMVRMSQDWKNNWTLVEMHGNNGSIDGDNAAAMRYTEARLSLIASELLKDI 131

Query: 148 DEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALI 207
           D+  V F   +++ + EP V P+ FPNLL NG +GIA G AT+IP HN+ E+ +A +  I
Sbjct: 132 DKKTVSFIPNFDDSEKEPTVLPALFPNLLINGATGIAAGYATNIPPHNLNEVIDALIYRI 191

Query: 208 DNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWC 267
           D+P  S++KL+E + GPDFPTGGII +  + I ++Y  G+G F +RA+  +E    G   
Sbjct: 192 DHPNCSVDKLMEIVKGPDFPTGGII-QGEDGISKAYETGKGKFIIRAKIEIEVNKNGLNQ 250

Query: 268 IVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED-VRIVLFPKNRSLDPDLLM 326
           IV+TEIPY+  K+ +++KI E+I   ++  +E++RDES  + +RI++  K +  + + ++
Sbjct: 251 IVITEIPYETNKANIVKKIEEIIFDNKVAGIEEVRDESDRNGIRIIIELK-KDANAEKIL 309

Query: 327 ESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRR 386
             +F  +D++  +  NM  ++  R P  + L   L  ++ H  EV+  RS + ++   +R
Sbjct: 310 NFLFKHTDLQINYNFNMVAIA-NRTPIQVGLLSYLDAYIKHCHEVIINRSKYELEKASKR 368

Query: 387 VEILKGLLIAYLNIDEIIAIIR-NEDK--PKPVMVSRFSLTENQVDAILNLRLRSLRKLE 443
           +EI++GL+ A   IDEII +IR +EDK   K  ++  F  TENQ +AI++LRL  L   +
Sbjct: 369 LEIVEGLIKAISIIDEIIKLIRSSEDKSDAKENLIDNFKFTENQAEAIVSLRLYRLTNTD 428

Query: 444 EYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVS 503
            +++K E + L  +   ++ ++ S K +   +  ++ E K+ F++      RR+   +  
Sbjct: 429 IFELKEEQNELEKKIISLEQIIASEKARNKLLKKQLEEYKKQFAQQ-----RRSQIEDFI 483

Query: 504 RADKATLQQAMIEKEPITVVISNRGWI-----RSLKSHSVDLSALHFKEGDSLKIALHAH 558
              K    + +IE E   V+I+  G+I     RS  S          K+ D L     A+
Sbjct: 484 NQIKINESE-LIENEDYYVLITKAGYIKRTSNRSFASSKYT--DFGSKDDDILFAQTIAN 540

Query: 559 TTDRILLLSTDGKAYTLPAGNLLSGRGH--GEAIQLLIDLNHNQDIVTAFVYDS----TC 612
           TTD+IL+ ++ G    +P   L   R    GE +   I  + N+ IV     +       
Sbjct: 541 TTDQILIFTSLGNIINIPVHKLADIRWKDLGEHLSNKITFDENETIVFVGTMNEFDVDQP 600

Query: 613 KLLVVSSKGNAFIVEESEIIAN-TRKGKTFLKVSSEEKMKLVVKVTGDH-VAVVGENRKL 670
            L++ S  G    +E +E+      K    +K+  ++ +        D  + +V +    
Sbjct: 601 ILVLASKLGMVKRIELTELNIKRNSKATLCIKLKDKDHLISAFLQQKDKLICLVSDLGYA 660

Query: 671 LIFSIDQIPEM-SRGKGVRLQSYK-DGGISDVICFKICEGLTWIDSAGRSYNRSENDLL 727
           L+F  ++IP + ++  GV+    K D  +   + F+  E L  +   G     S ++L+
Sbjct: 661 LVFHTNEIPVVGAKAAGVKGMKLKEDDQVKSGVIFEANESLVLLTQRGSVKRLSISELV 719


>gnl|CDD|184434 PRK13979, PRK13979, DNA topoisomerase IV subunit A; Provisional.
          Length = 957

 Score =  414 bits (1067), Expect = e-116
 Identities = 226/616 (36%), Positives = 370/616 (60%), Gaps = 31/616 (5%)

Query: 16  NVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKS 75
           N+  + L  A+ E YL YA+   K+RA+PD+RDG KPVHRRI++    +       + KS
Sbjct: 12  NIIKIPLEEAMPENYLPYAVEVAKDRALPDVRDGLKPVHRRILYGAYMLKAFPDKPYYKS 71

Query: 76  ARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEAR 135
           ARIVG+++GK HPHGD SVYD++V LAQ F  R PLI G GN+G+IDGDSAAA RYTEAR
Sbjct: 72  ARIVGDILGKYHPHGDSSVYDAMVILAQDFTTRMPLIDGHGNWGSIDGDSAAAMRYTEAR 131

Query: 136 MTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHN 195
           +T +A  +L+ +D+D V+  D Y++ + EP V P+++PNLL NG  GIAVG+AT+IP HN
Sbjct: 132 LTPIAMEMLRDIDKDVVNMVDNYSDSEKEPEVLPARYPNLLVNGAFGIAVGLATNIPPHN 191

Query: 196 VQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRAR 255
           ++E+ +  LA IDN EI+ ++L+ YI GPD PTGGI++  ++S++ +Y  G G   +RA+
Sbjct: 192 LKEVIDGTLAYIDNNEITTKELMNYIKGPDLPTGGILI-GKKSLLSAYETGEGKVTLRAK 250

Query: 256 WCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKR----IPLLEDIRDESAED-VR 310
             +E++  G   IV+TE PY+  K++L++ I+E+   K+    +  + DIRDES  + +R
Sbjct: 251 TKIEKLENGRLGIVITEFPYRRNKAKLLQTISEMTADKKHSKALENISDIRDESDRNGIR 310

Query: 311 IVLFPKNRSLDPDL---LMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAH 367
            V+  K +S D D+   +++ ++  +D++     NM  L+ G+ P+ M L  +LK ++ H
Sbjct: 311 AVIEFK-KSADEDVAEKVLKYLYKKTDLQCNISFNMVALADGK-PETMGLKTMLKHYVEH 368

Query: 368 RREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPV---MVSRFSLT 424
           ++EV+ RR+   ++  ++R  I++G + A   +DEII  IR+    K     ++ +F  T
Sbjct: 369 QKEVVTRRTKKELEIAEKRFHIVEGFIKAIGIMDEIIKTIRSSKSKKDASENLIEKFGFT 428

Query: 425 ENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKE 484
           + Q +AIL L L  L  LE    + E   L    +K+  +L+S K+    I  E++EVKE
Sbjct: 429 DEQAEAILELMLYRLTGLEIVAFEKEYKELEKLIKKLTKILSSEKELLKVIKKELKEVKE 488

Query: 485 IFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIR--SLKSH---SVD 539
            +        RRT+  E     K  +++ ++  E + + +SN G+I+   LKS+   + +
Sbjct: 489 KYGD-----ERRTSIIEDDEKAKIDVEELIVV-EDVVITLSNEGFIKRIPLKSYNRSNSN 542

Query: 540 LSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNL--LSGRGHGEAIQLLI--- 594
           +  + ++EGD  K  + ++T D +L+ +  G  Y +   N+     +  GE +  +I   
Sbjct: 543 VEDIEYREGDFNKFLIQSNTKDTLLIFTDKGNMYQIKGINIPEFKWKEKGERLDEIIKGI 602

Query: 595 DLNHNQDIVTAFVYDS 610
           DL  ++ I+ A+  + 
Sbjct: 603 DLE-SEKIIEAYSIED 617


>gnl|CDD|182004 PRK09631, PRK09631, DNA topoisomerase IV subunit A; Provisional.
          Length = 635

 Score =  223 bits (571), Expect = 1e-58
 Identities = 150/495 (30%), Positives = 245/495 (49%), Gaps = 52/495 (10%)

Query: 26  LEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGK 85
            ++ +L YA   IK+RAIPD+ DG KPV RRI+H++ EM    G  F K A +VG  + K
Sbjct: 8   FKDNFLQYASYVIKDRAIPDVIDGLKPVQRRILHSLFEM--HDGK-FHKVANVVGNTM-K 63

Query: 86  LHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQVAELIL 144
            HPHGD S+Y++LV LA     +   I  QGNFGN+  GD A+A RY E R+T +A+ +L
Sbjct: 64  YHPHGDASIYEALVNLAN----KDLFIDKQGNFGNLFTGDPASAARYIECRLTPLAKEVL 119

Query: 145 QGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAAL 204
              +++  ++  +Y+  ++EP+  P+K P +L  G  GIAVGMAT I  HN  EI +A  
Sbjct: 120 --YNKEITEYEPSYDGRNNEPLCLPAKIPVILIQGAEGIAVGMATKILPHNFNEILQA-- 175

Query: 205 ALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRG 264
                   S      + + PDFPTGGI+       V  Y  G G   VRA+  +E     
Sbjct: 176 ------VKSELLGESFALYPDFPTGGIV------DVSEYADGNGKVLVRAK--IETKDEK 221

Query: 265 SWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVL-FPKNRSLDPD 323
           +  IV+ EIP+      LI  I +     +I +   I D +AE+V I +  P  R +   
Sbjct: 222 T--IVIREIPFGTTTESLIASIEKAARKGKIKISS-INDYTAENVEIEIKLP--RGVYAS 276

Query: 324 LLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAI 383
            ++E+++  +D E    +N+ V+   R P +  +  I+K    H ++VL          +
Sbjct: 277 EVIEALYAYTDCEVSISVNLLVIK-DRYPVIYTVTDIIKFHAEHLQKVLKMELELERAKL 335

Query: 384 DRRV--EILKGLLIA---YLNIDEI------IAIIRNEDKPKPVMVSRFSLTENQVDAIL 432
             ++  + L+ + I    Y  I+ I      I+I+ +E KP    +SR  +TE  ++ +L
Sbjct: 336 LEKIFAKTLEQIFIEERIYKRIETISSEEDVISIVLSELKPFKEELSR-DVTEEDIENLL 394

Query: 433 NLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDL 492
            + +R +   +  + + E+  L  E + ++  L       +     I  + ++ +K +  
Sbjct: 395 KIPIRRISLFDIDKNQKEIRILNKELKSVEKNLK------SIKGYAINFIDKLLAKYSKE 448

Query: 493 GRRRTTFCEVSRADK 507
             R+T    +   D 
Sbjct: 449 YPRKTEISLIKSVDV 463


>gnl|CDD|183728 PRK12758, PRK12758, DNA topoisomerase IV subunit A; Provisional.
          Length = 869

 Score =  202 bits (516), Expect = 3e-52
 Identities = 122/311 (39%), Positives = 175/311 (56%), Gaps = 33/311 (10%)

Query: 30  YLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPH 89
           +L YA   I ERA+P + DG KPV RRI+H+M EM  D G  + K A +VG  + + HPH
Sbjct: 31  FLDYASYVILERAVPHIEDGLKPVQRRILHSMKEM--DDGR-YNKVANVVGHTM-QYHPH 86

Query: 90  GDQSVYDSLVRLAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQVAELILQGVD 148
           GD S+ D+LV+L Q    +  LI  QGN+GNI  GD AAA RY EAR+++ A  ++   +
Sbjct: 87  GDASIGDALVQLGQ----KDLLIDTQGNWGNILTGDGAAAPRYIEARLSKFALEVV--FN 140

Query: 149 EDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALID 208
               +++ +Y+    EPV  P KFP LLA G  GIAVG++T I  HN  E+ +A++A + 
Sbjct: 141 PKTTEWQLSYDGRKKEPVTLPVKFPLLLAQGAEGIAVGLSTKILPHNFNELIDASIAYLK 200

Query: 209 NPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCI 268
             E  +     Y   PDFPTGGII  S       Y  G  G RVR R  +E++ + +  I
Sbjct: 201 GKEFKL-----Y---PDFPTGGIIDVSN------YNDGERGGRVRVRAKIEKLDKKTLVI 246

Query: 269 VVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIV--LFPKNRSLDPDLLM 326
             TEIPY    S LI+ I +     +I  ++ + D +A DV I+  L P    + PD  +
Sbjct: 247 --TEIPYGTTTSSLIDSILKANDKGKIK-IKKVEDNTAADVEILVHLAP---GVSPDKTI 300

Query: 327 ESIFMLSDMET 337
           ++++  +D E 
Sbjct: 301 DALYAFTDCEV 311


>gnl|CDD|170022 PRK09630, PRK09630, DNA topoisomerase IV subunit A; Provisional.
          Length = 479

 Score =  146 bits (370), Expect = 2e-35
 Identities = 89/226 (39%), Positives = 126/226 (55%), Gaps = 25/226 (11%)

Query: 30  YLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPH 89
           ++ YA   I ERAIP + DG KPV RR++  +  M  D G    K A I G  +  LHPH
Sbjct: 12  FMHYASYVILERAIPHILDGLKPVQRRLLWTLFRM--DDGK-MHKVANIAGRTMA-LHPH 67

Query: 90  GDQSVYDSLVRLAQPFVQRYPLISGQGNFGN-IDGDSAAAYRYTEARMTQVAELILQGVD 148
           GD  + ++LV LA     +  LI  QGNFGN + GD  AA RY EAR++ +A+ +L   +
Sbjct: 68  GDAPIVEALVVLAN----KGYLIDTQGNFGNPLTGDPHAAARYIEARLSPLAKEVL--FN 121

Query: 149 EDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALID 208
            D + F D+Y+  + EP + P+K P LL +G  GIAVGM T I  HN  E+ EA +A+++
Sbjct: 122 TDLMTFHDSYDGREKEPDILPAKLPLLLLHGVDGIAVGMTTKIFPHNFCELLEAQIAILN 181

Query: 209 NPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRA 254
           +   ++         PDFP+GG +  S       Y+ G G   +RA
Sbjct: 182 DQPFTLL--------PDFPSGGTMDAS------EYQDGLGSITLRA 213


>gnl|CDD|177419 PHA02592, 52, DNA topisomerase II medium subunit; Provisional.
          Length = 439

 Score =  135 bits (341), Expect = 5e-32
 Identities = 111/445 (24%), Positives = 184/445 (41%), Gaps = 62/445 (13%)

Query: 31  LAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHG 90
           L YA+ T++ERAIP+L DG KPV R +IH   E        F K A I G V    + HG
Sbjct: 17  LEYAMYTVEERAIPNLIDGLKPVQRFVIHRALEYAKGNKEKFDKVAAIAGGVADLGYHHG 76

Query: 91  DQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDED 150
           + S  D+   +A  +    PL+ GQGNFG+     AAA RY  AR+              
Sbjct: 77  ETSAQDAGALMANTWNNNIPLLDGQGNFGSRLVQKAAAARYIFARVHDN----------- 125

Query: 151 AVDFRDTYNEEDSEPVV-----FPSKF-----PNLLANGTSGIAVGMATSIPSHNVQEIC 200
              FR  Y +ED  PV       P  F     P +L NG SGIA G AT+I  H+ + + 
Sbjct: 126 ---FRKIYKDEDLAPVHEDPEHIPPAFYLPIIPMVLLNGVSGIATGYATNILPHSPKSVI 182

Query: 201 EAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEE 260
           +A LA ++  +I+ E  +++   P+F   G +VE      E                 E 
Sbjct: 183 KAVLAALNGKDIT-EPKVQF---PEFK--GEVVEIEPGSYEIRGT------------YEL 224

Query: 261 VGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSL 320
            G+    + +TEIP +  +   +  +  L    +I   +D   E     ++ L    R  
Sbjct: 225 NGKTK--LHITEIPVKYDRETYVAVLDPLEEKGKIVSYDDC-TEDGFRFKVTL---KREE 278

Query: 321 DPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMP-LDGILKEWLAHRREVLFRRSSFR 379
           + +   E I     +  R   N+ V++     +V    + ++++++  R+  + +R  + 
Sbjct: 279 NEEATHEKIMKDFGLIERVSQNITVINENGKLKVYENAEDLIRDFVEIRKTYVQKRIQYE 338

Query: 380 MQ----AIDR---RVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAIL 432
           ++    A D    + E +K        I   I +           +S         D ++
Sbjct: 339 IKETEEAFDLALAKAEFIK------RVIAGEIVLQGKTRSELTEELSDNKDFGEYADKLV 392

Query: 433 NLRLRSLRKLEEYQIKSELDNLLAE 457
            + + S+   E  +++ E + L  E
Sbjct: 393 AMNIYSMTSDEREKLQKEAEELEKE 417


>gnl|CDD|185451 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
          Length = 1388

 Score = 98.2 bits (245), Expect = 6e-21
 Identities = 91/373 (24%), Positives = 154/373 (41%), Gaps = 60/373 (16%)

Query: 40   ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK-------KSARIVGEVIGK--LHPHG 90
            ER+IP L DG KP  R+I+ A           FK       K A++ G V      H HG
Sbjct: 679  ERSIPSLVDGLKPGQRKILFAC----------FKRNLKNEIKVAQLSGYVSEHSAYH-HG 727

Query: 91   DQSVYDSLVRLAQPFV--QRYPLISGQGNFG--NIDGDSAAAYRYTEARMTQVAELILQG 146
            +QS+  ++V +AQ FV      L+   G FG     G   AA RY   +++++   I   
Sbjct: 728  EQSLQQTIVGMAQNFVGSNNINLLYPCGQFGSRLQGGKDHAAARYIFTKLSKITRYIFPE 787

Query: 147  VDEDAVDFRDTYNEEDS---EPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAA 203
             D+  +D    Y E+D    EP  +    P +L NG  GI  G +TSIP++N  +I +  
Sbjct: 788  EDDPILD----YLEDDGQSVEPFYYVPIIPMVLVNGAEGIGTGFSTSIPNYNPLDIIDNL 843

Query: 204  LALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGR 263
               ++  E  +  L+ +  G      G I  + +          G F  +  +     G 
Sbjct: 844  RRRLNGEE--VRPLVPWYRGFK----GTIERNPK----------GKFISKGIYEKVPDGT 887

Query: 264  GSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDES-AEDVRIVLFPKNRSLDP 322
                + +TE+P         E +    + ++  ++ D RD S A  V   +   +  L+ 
Sbjct: 888  ----VEITELPIGKWTEDYKEFLESETLKEK-DVIVDYRDYSTANTVHFTVKLNDGVLEQ 942

Query: 323  --DLLMESIFMLSDMETRFPLNMNVLS--MGRVPQVMPLDGILKEWLAHRREVLFRRSSF 378
              +  +E +F L    +       VL    G++ +      ILKE+   R ++  +R  +
Sbjct: 943  WEEEGIEKVFKLK---STISTTNMVLFDENGKIKKYSDALDILKEFYLVRLDLYKKRKEY 999

Query: 379  RMQAIDRRVEILK 391
             +  ++R +  L 
Sbjct: 1000 LLGKLERELARLS 1012


>gnl|CDD|178674 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
          Length = 1135

 Score = 80.1 bits (198), Expect = 2e-15
 Identities = 101/469 (21%), Positives = 190/469 (40%), Gaps = 84/469 (17%)

Query: 40   ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK---KSARIVGEVIGK-LHPHGDQSVY 95
             R+IP + DG KP  R+++ A       F    K   K A++ G V     + HG+ S+ 
Sbjct: 672  ARSIPSMVDGLKPSQRKVLFAC------FKRNLKSEIKVAQLSGYVAEHSAYHHGEASLA 725

Query: 96   DSLVRLAQPFV--QRYPLISGQGNFGN--IDGDSAAAYRYTEARMTQVAELILQGVDEDA 151
             +++ +AQ FV      L++  G FG     G  AA+ RY   R++ +   +    D+  
Sbjct: 726  STIIGMAQDFVGSNNINLLTPSGQFGTRLQGGKDAASARYIFTRLSPITRALFPKDDDVL 785

Query: 152  VDFRDTYNEEDS---EPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALID 208
            ++    Y  ED    EP  +    P +L NG+ GI  G +T IP++N ++I      L+ 
Sbjct: 786  LN----YLNEDGQSIEPEWYCPIIPMVLVNGSEGIGTGWSTFIPNYNPRDIIANIRRLLR 841

Query: 209  NPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCI 268
              E  +E +  +  G  F  G I   S            G + V     +E++G  +  I
Sbjct: 842  GEE--LEPMHPWYRG--F-KGTITEVSTS--------RSGSYTVTGI--IEQIGDTT--I 884

Query: 269  VVTEIPYQVQKSRLIEKIAELIIAKRI--PLLEDIRDESAE-DVRIVLFPKNRSLDPDLL 325
             +TE+P +       E +  L+   +   P ++D ++   +  V   +     +L  + +
Sbjct: 885  RITELPVRKWTQDYKEFLEALLTGTKKKEPEIKDFKENHTDTTVHFTV-----TLSEEKM 939

Query: 326  MESIFMLSDMETRFPL-------NMNVLSM-GRVPQVMPLDGILKEWLAHR-------RE 370
              +  +   +E +F L       NM++    G++ +    + IL+E+   R       +E
Sbjct: 940  --ARALAEGLEKKFKLSTTISTSNMHLFDKDGKIKKYDSPEDILEEFFHLRLDLYVKRKE 997

Query: 371  VLFRRSSFRMQAIDRRVEILKGLLIAYLNID-----EIIAIIRNEDKPKPVMVSRFSLTE 425
            VL     + ++ +D +   +  ++   + ++     E++A +  +         +F  T 
Sbjct: 998  VLLENLEYELKKLDNKARFILAVVKGEIVVNNRKRAELLAELEEKG------FDKFPKTA 1051

Query: 426  NQVDAILNLRLRSLRKLEEYQIKSEL----DNLLAEK------EKIDSL 464
               +  +          EE    +EL    D LL         EK+D L
Sbjct: 1052 KISETNVVGDRDGEASEEEEASDNELAKSYDYLLGMPISSLTLEKVDEL 1100


>gnl|CDD|178775 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
          Length = 1465

 Score = 69.5 bits (170), Expect = 3e-12
 Identities = 51/173 (29%), Positives = 81/173 (46%), Gaps = 25/173 (14%)

Query: 40  ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARI---VGEVIGKLHP---HGDQS 93
           +R+IP + DG KP  R+I+         F   F K A++    G V    H    HG+QS
Sbjct: 697 QRSIPSMVDGLKPGQRKILFC------SFKRNFVKEAKVAQLSGYV--SEHSAYHHGEQS 748

Query: 94  VYDSLVRLAQPFV--QRYPLISGQGNFG--NIDGDSAAAYRYTEARMTQVAELILQGVDE 149
           +  +++ +AQ FV      L+   G FG     G   A+ RY   R++ +   +    D+
Sbjct: 749 LASTIIGMAQDFVGSNNINLLLPNGQFGTRLQGGKDHASARYIFTRLSPITRFLFPKDDD 808

Query: 150 DAVDFRDTYNEEDS---EPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEI 199
             +D+ +    ED    EP  +    P +L NG  GI  G +T IP++N ++I
Sbjct: 809 ILLDYLN----EDGQSIEPTWYMPIIPTVLVNGAEGIGTGWSTFIPNYNPRDI 857


>gnl|CDD|181718 PRK09238, PRK09238, bifunctional aconitate hydratase
           2/2-methylisocitrate dehydratase; Validated.
          Length = 835

 Score = 30.9 bits (71), Expect = 1.2
 Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 14/84 (16%)

Query: 587 GEAIQLLIDLNHNQDIV---------TAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRK 637
           G  ++ LIDL  + ++          T  V+D+   +   +  GNA+     E++ +   
Sbjct: 96  GYNVEPLIDLLDDAELAPEAAEALKHTLLVFDAFHDVAEKAKAGNAY---AKEVLESWAD 152

Query: 638 GKTFLKVSS-EEKMKLVV-KVTGD 659
            + F       EK+ + V KVTG+
Sbjct: 153 AEWFTSRPELPEKITVTVFKVTGE 176


>gnl|CDD|162661 TIGR02016, BchX, chlorophyllide reductase iron protein subunit X.
           This model represents the X subunit of the three-subunit
           enzyme, (bacterio)chlorophyllide reductase. This enzyme
           is responsible for the reduction of the chlorin B-ring
           and is closely related to the protochlorophyllide
           reductase complex which reduces the D-ring. Both of
           these complexes in turn are homologous to nitrogenase.
           This subunit is homologous to the nitrogenase component
           II, or "iron" protein.
          Length = 296

 Score = 30.2 bits (68), Expect = 1.9
 Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 3/71 (4%)

Query: 269 VVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMES 328
           V+  IP   ++ R      +++ +   P    + +E A +V      + R L PD L+  
Sbjct: 209 VLAAIPAD-EELRRKSLAYQIVGSHATPRFGKLFEELAGNVADAPPLRPRPLSPDALLAL 267

Query: 329 IFMLSDMETRF 339
               +  ETR 
Sbjct: 268 F--ETLPETRV 276


>gnl|CDD|167650 PRK03967, PRK03967, histidinol-phosphate aminotransferase;
           Provisional.
          Length = 337

 Score = 30.1 bits (68), Expect = 1.9
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 416 VMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSG 468
           + +  + L E ++D I+  R R  R+L EY   S+ + LL + +  D LL +G
Sbjct: 245 LALDHYDLIEERIDYIIKERERVRRELGEYAYPSDANFLLLKLDAYDYLLENG 297


>gnl|CDD|183835 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
          Length = 1146

 Score = 29.0 bits (66), Expect = 5.2
 Identities = 8/11 (72%), Positives = 10/11 (90%)

Query: 396 AYLNIDEIIAI 406
           AYL+IDEII +
Sbjct: 63  AYLDIDEIIRV 73


>gnl|CDD|132132 TIGR03088, stp2, sugar transferase, PEP-CTERM/EpsH1 system
           associated.  Members of this family include a match to
           the pfam00534 Glycosyl transferases group 1 domain.
           Nearly all are found in species that encode the
           PEP-CTERM/exosortase system predicted to act in protein
           sorting in a number of Gram-negative bacteria. In
           particular, these transferases are found proximal to a
           particular variant of exosortase, EpsH1, which appears
           to travel with a conserved group of genes summarized by
           Genome Property GenProp0652. The nature of the sugar
           transferase reaction catalyzed by members of this clade
           is unknown and may conceivably be variable with respect
           to substrate by species, but we hypothesize a conserved
           substrate.
          Length = 374

 Score = 28.9 bits (65), Expect = 5.4
 Identities = 21/72 (29%), Positives = 28/72 (38%), Gaps = 6/72 (8%)

Query: 46  LRDGFKP--VHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLH-PHGDQSVYDSLVRLA 102
           LR   +P  VH R + A+        A     ARI GE    +    G    Y  L RL 
Sbjct: 77  LRQ-LRPDIVHTRNLAALEAQLPAALAGVP--ARIHGEHGRDVFDLDGSNWKYRWLRRLY 133

Query: 103 QPFVQRYPLISG 114
           +P +  Y  +S 
Sbjct: 134 RPLIHHYVAVSR 145


>gnl|CDD|182329 PRK10245, adrA, diguanylate cyclase AdrA; Provisional.
          Length = 366

 Score = 27.9 bits (62), Expect = 9.8
 Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 21/81 (25%)

Query: 584 RGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLK 643
           R H +A  L+ID++H + I   + +D                V +  I+A TR+ +  L+
Sbjct: 232 RHHRDATLLIIDIDHFKSINDTWGHD----------------VGDEAIVALTRQLQITLR 275

Query: 644 VSSEEKMKLVVKVTGDHVAVV 664
            S      ++ +  GD  AV+
Sbjct: 276 GSD-----VIGRFGGDEFAVI 291


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.319    0.137    0.389 

Gapped
Lambda     K      H
   0.267   0.0681    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 12,491,153
Number of extensions: 855189
Number of successful extensions: 1806
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1727
Number of HSP's successfully gapped: 40
Length of query: 753
Length of database: 5,994,473
Length adjustment: 101
Effective length of query: 652
Effective length of database: 3,812,065
Effective search space: 2485466380
Effective search space used: 2485466380
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 (21.8 bits)
S2: 61 (27.4 bits)