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)