BLASTP 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0031.0015.p (482 letters) Database: pfamseq 15,929,002 sequences; 5,169,768,107 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value D8ISM8.1 D8ISM8_HERSS RNA polymerase sigma-N (Sigma-54) factor t... 979 0.0 A6T3E5.1 A6T3E5_JANMA RNA polymerase sigma-54 factor 776 0.0 F1VYM1.1 F1VYM1_9BURK Sigma N (Sigma 54) factor of RNA polymerase 766 0.0 A4G9N1.1 A4G9N1_HERAR RNA polymerase, sigma 54 (Sigma N) factor 761 0.0 D5WB99.1 D5WB99_BURSC RNA polymerase, sigma 54 subunit, RpoN 569 e-160 B2SXH6.1 B2SXH6_BURPP RNA polymerase, sigma 54 subunit, RpoN 568 e-160 B5WNS0.1 B5WNS0_9BURK RNA polymerase, sigma 54 subunit, RpoN 565 e-159 E8YLY4.1 E8YLY4_9BURK RNA polymerase, sigma 54 subunit, RpoN 563 e-158 C3X4U3.1 C3X4U3_OXAFO RNA polymerase factor sigma-54 562 e-158 D5NMI8.1 D5NMI8_9BURK RNA polymerase, sigma 54 subunit, RpoN 561 e-157 >D8ISM8.1 D8ISM8_HERSS RNA polymerase sigma-N (Sigma-54) factor transcription regulator protein Length = 496 Score = 979 bits (2530), Expect = 0.0, Method: Compositional matrix adjust. Identities = 482/482 (100%), Positives = 482/482 (100%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 60 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV Sbjct: 15 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 74 Query: 61 SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQL 120 SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQL Sbjct: 75 SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQL 134 Query: 121 EAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVDL 180 EAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVDL Sbjct: 135 EAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVDL 194 Query: 181 EELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQRD 240 EELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQRD Sbjct: 195 EELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQRD 254 Query: 241 FNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNH 300 FNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNH Sbjct: 255 FNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNH 314 Query: 301 EVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF 360 EVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF Sbjct: 315 EVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF 374 Query: 361 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE 420 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE Sbjct: 375 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE 434 Query: 421 ASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLRK 480 ASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLRK Sbjct: 435 ASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLRK 494 Query: 481 SL 482 SL Sbjct: 495 SL 496 >A6T3E5.1 A6T3E5_JANMA RNA polymerase sigma-54 factor Length = 489 Score = 776 bits (2003), Expect = 0.0, Method: Compositional matrix adjust. Identities = 390/482 (80%), Positives = 429/482 (89%), Gaps = 7/482 (1%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 60 LTPQLQQSIRLLQLSTLELHQELEQIL DNP+LER DD LD++VRLLADGA+ G Sbjct: 15 LTPQLQQSIRLLQLSTLELHQELEQILADNPMLERTDDPLDHAVRLLADGAI------GA 68 Query: 61 SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQL 120 S TT AS EA + E+SFE D PE +GDS+WSFDDVAR+ K+P+D+DARPQL Sbjct: 69 SGTTPEGASVEANTQTPESETSFEAPDL-PEASNGDSEWSFDDVARTSKAPEDDDARPQL 127 Query: 121 EAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVDL 180 EAHE TLREHLLEQ+RVT R RDRALLEL+ DAL+D+GYLEE LE+I ARLPEEL ++L Sbjct: 128 EAHETTLREHLLEQMRVTVREHRDRALLELIIDALNDNGYLEEELEEIHARLPEELEIEL 187 Query: 181 EELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQRD 240 EEL ISLK+LQS DP GVGAR A ECLALQI+R+PKV VTRR+AL IVE++LPLFAQRD Sbjct: 188 EELQISLKMLQSFDPPGVGARDAAECLALQIKRMPKVAMVTRRMALAIVENHLPLFAQRD 247 Query: 241 FNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNH 300 FNK++KALDCDDEDLREAQA+I+QC PHPG+ FA DASDYVVPDVIVK+T+NGWQVMLNH Sbjct: 248 FNKLRKALDCDDEDLREAQAIIKQCNPHPGSIFATDASDYVVPDVIVKRTRNGWQVMLNH 307 Query: 301 EVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF 360 +VMP+LRVN+MYA+ LKQ+KGEGSL SQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF Sbjct: 308 DVMPRLRVNSMYANILKQSKGEGSLGSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF 367 Query: 361 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE 420 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATE GGE Sbjct: 368 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATEAGGE 427 Query: 421 ASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLRK 480 ASSTAIRALIKQLIGAE+P+ P SDSKIADMLAEQGMVVARRTVAKYRE LKIPPVNLRK Sbjct: 428 ASSTAIRALIKQLIGAEDPKIPFSDSKIADMLAEQGMVVARRTVAKYREALKIPPVNLRK 487 Query: 481 SL 482 SL Sbjct: 488 SL 489 >F1VYM1.1 F1VYM1_9BURK Sigma N (Sigma 54) factor of RNA polymerase Length = 493 Score = 766 bits (1978), Expect = 0.0, Method: Compositional matrix adjust. Identities = 380/483 (78%), Positives = 425/483 (87%), Gaps = 5/483 (1%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 60 LTPQLQQSIRLLQLSTLELHQELEQ+LTDNPLLERLDD LD+SVRLLADGA+ A G+ Sbjct: 15 LTPQLQQSIRLLQLSTLELHQELEQMLTDNPLLERLDDPLDHSVRLLADGALGA---EGI 71 Query: 61 SETTGSEASSEAAPAAADGESSFEYQDTAPEGV-SGDSDWSFDDVARSGKSPDDEDARPQ 119 + SE + AAP+ ++ ++ Q+ A + S D+DWSFDDVAR+ K+P+D+DARPQ Sbjct: 72 RQEGASE-DANAAPSPSEPDAPAPDQNDAGDATPSTDADWSFDDVARTSKAPEDDDARPQ 130 Query: 120 LEAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVD 179 LEAHE TLRE LLEQ+RVT R RDRAL+EL+ DAL+D+GYL++ LE +L RLP EL V+ Sbjct: 131 LEAHESTLREFLLEQMRVTVRNPRDRALVELMIDALNDNGYLDDTLEAMLERLPAELEVE 190 Query: 180 LEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQR 239 EEL+I+LKLLQS DP GVGAR+A ECLALQIRR P + VTRR+AL IVEDYLPLFAQR Sbjct: 191 PEELTIALKLLQSFDPPGVGARNAAECLALQIRRFPGIAMVTRRMALTIVEDYLPLFAQR 250 Query: 240 DFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLN 299 DF+K+KKALDCDDEDLREAQ+VIRQC PHPGA F SDYVVPDVIVK+TK GWQVMLN Sbjct: 251 DFSKLKKALDCDDEDLREAQSVIRQCNPHPGAIFGGGTSDYVVPDVIVKRTKAGWQVMLN 310 Query: 300 HEVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRN 359 H+VMP+LRVNAMYA+ LKQ+KG+GSL+SQLQEAKWLIKNMRQRFDTILRVAQAIVERQRN Sbjct: 311 HDVMPRLRVNAMYANILKQSKGDGSLTSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRN 370 Query: 360 FFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGG 419 FFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGG Sbjct: 371 FFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGG 430 Query: 420 EASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLR 479 EASSTAIRALIKQLIGAE+P+ P SDSKIADML EQGMVVARRTVAKYRE LKIPPVNLR Sbjct: 431 EASSTAIRALIKQLIGAEDPKIPFSDSKIADMLGEQGMVVARRTVAKYREALKIPPVNLR 490 Query: 480 KSL 482 K+L Sbjct: 491 KAL 493 >A4G9N1.1 A4G9N1_HERAR RNA polymerase, sigma 54 (Sigma N) factor Length = 489 Score = 761 bits (1965), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/482 (79%), Positives = 426/482 (88%), Gaps = 7/482 (1%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 60 LTPQLQQSIRLLQLSTLELHQELEQIL DNPLLER DD LD+++RLLADGA+ G Sbjct: 15 LTPQLQQSIRLLQLSTLELHQELEQILADNPLLERTDDPLDHAIRLLADGAI------GS 68 Query: 61 SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQL 120 + TT AS EA + ++S E + A E +GD++WSFDDVAR+ K+PDD+DARPQL Sbjct: 69 AGTTPEGASVEANAQTPESDTSVEAPEPA-EASNGDAEWSFDDVARTSKAPDDDDARPQL 127 Query: 121 EAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVDL 180 EAHE TLREHLLEQ+RVT R +RDRALLEL+ DAL+D+GYLEE LE+I ARLPEEL ++ Sbjct: 128 EAHETTLREHLLEQMRVTVRERRDRALLELIIDALNDNGYLEETLEEIHARLPEELEIEP 187 Query: 181 EELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQRD 240 EEL I+L LLQS DPAGVGAR+A ECLALQI+R+PKV VTRR+AL IVE +L LFAQRD Sbjct: 188 EELQIALNLLQSFDPAGVGARNASECLALQIKRMPKVAMVTRRMALAIVEHHLGLFAQRD 247 Query: 241 FNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNH 300 FNK++KALDCDDEDLREAQ VI+QC PHPG+ FA D SDYVVPDVIVK+T+NGWQVMLNH Sbjct: 248 FNKLRKALDCDDEDLREAQVVIKQCNPHPGSIFATDTSDYVVPDVIVKRTRNGWQVMLNH 307 Query: 301 EVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF 360 +VMP+LRVN+MYA+ LKQ+KGEGSL SQLQEAKWLIKNMRQRFDTILRV+QAIVERQRNF Sbjct: 308 DVMPRLRVNSMYANILKQSKGEGSLGSQLQEAKWLIKNMRQRFDTILRVSQAIVERQRNF 367 Query: 361 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE 420 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE Sbjct: 368 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE 427 Query: 421 ASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLRK 480 ASSTAIRALIKQLIGAEN +TP SDSKIA+MLAEQGMVVARRTVAKYRE LKIPPVNLRK Sbjct: 428 ASSTAIRALIKQLIGAENQKTPFSDSKIAEMLAEQGMVVARRTVAKYREALKIPPVNLRK 487 Query: 481 SL 482 SL Sbjct: 488 SL 489 >D5WB99.1 D5WB99_BURSC RNA polymerase, sigma 54 subunit, RpoN Length = 505 Score = 569 bits (1467), Expect = e-160, Method: Compositional matrix adjust. Identities = 301/503 (59%), Positives = 372/503 (73%), Gaps = 33/503 (6%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 60 LTPQLQQSIRLLQLSTLEL QE+ ++ NPLLE D+ + + +R+ ADG+V + Sbjct: 15 LTPQLQQSIRLLQLSTLELQQEVAMAISQNPLLENEDEWIASPLRVAADGSV-------I 67 Query: 61 SETTGSEASSEAAPAAADGESSFE-----YQDTAPEGV------SGD-----SDWSFDDV 104 ++T GS S+ A P A +G +S E + P+GV SGD S W+ DD Sbjct: 68 AQTPGS--SAPADPMAGNGSTSSEGNGERAESGEPQGVDEYNGLSGDGGGDTSQWNLDDY 125 Query: 105 ARSGKSPDDEDARPQLEAHE--ITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLE 162 RSG + DD+D P L+ HE +LR+HL+ Q+RVT +QRDRAL+ L ++LDD GYL Sbjct: 126 GRSGNASDDDDL-PPLQIHESSTSLRDHLMAQLRVTQASQRDRALITFLIESLDDDGYLA 184 Query: 163 EPLEDILARLPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTR 222 LE++LA LPEEL VD++EL+ +L LL S DP GVGARSA ECL LQ+ RL P TR Sbjct: 185 ATLEEVLADLPEELEVDVDELNAALALLHSFDPPGVGARSASECLKLQLLRLEPSP--TR 242 Query: 223 RLALKIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVV 282 LAL IV YL L A RDF +++K L D+DLR+A A+IR P PGA + + +DYVV Sbjct: 243 TLALDIVGRYLELLAARDFTRLRKHLKASDDDLRDAHALIRSLEPFPGAAYGKAEADYVV 302 Query: 283 PDVIVKQTKNGWQVMLNHEVMPKLRVNAMYASALKQAKGE---GSLSSQLQEAKWLIKNM 339 PD++V++T GWQ LN EV+PKLR+N +YA+ L+ +G+ GSL QLQEA+WLIKN+ Sbjct: 303 PDIMVRKTAQGWQAELNPEVVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNI 362 Query: 340 RQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTP 399 +QRF+TILRVAQAIVERQ++FF HG +AMRPLVLREIADTLGLHEST+SRVTT KYMLTP Sbjct: 363 QQRFETILRVAQAIVERQKSFFVHGEIAMRPLVLREIADTLGLHESTVSRVTTGKYMLTP 422 Query: 400 HGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVV 459 G E KYFFGSHV+T+TGG ASSTAIRALIKQLIGAENP++PLSDS+IA++LAEQG VV Sbjct: 423 FGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAENPKSPLSDSRIAELLAEQGFVV 482 Query: 460 ARRTVAKYREVLKIPPVNLRKSL 482 ARRTVAKYRE LKIP VNLRKSL Sbjct: 483 ARRTVAKYREALKIPAVNLRKSL 505 >B2SXH6.1 B2SXH6_BURPP RNA polymerase, sigma 54 subunit, RpoN Length = 503 Score = 568 bits (1464), Expect = e-160, Method: Compositional matrix adjust. Identities = 297/492 (60%), Positives = 370/492 (75%), Gaps = 13/492 (2%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGA-VSAAPSSG 59 LTPQLQQSIRLLQLSTLEL QE+ ++ NPLLE DD + + +R+ ADG+ ++ AP+S Sbjct: 15 LTPQLQQSIRLLQLSTLELQQEVAMAISQNPLLENEDDWIASPLRVAADGSLIAQAPNSS 74 Query: 60 V--SETTGSEASSEAAPAAADGESSF--EYQDTAPEGVSGDSDWSFDDVARSGKSPDDED 115 + G+ +SS ++ A +GE EY A +G S W+ DD RSG + DD+D Sbjct: 75 APPDQMGGNTSSSSSSERAENGEPQGVDEYNGLAGDGNGDASQWNLDDYGRSGNASDDDD 134 Query: 116 ARPQLEAHE--ITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLP 173 P L+ HE +LR+HL+ Q+RVT QRDRAL+ L ++LDD GYL LE++LA LP Sbjct: 135 L-PPLQIHESSTSLRDHLMAQLRVTQAGQRDRALITFLIESLDDDGYLAATLEEVLADLP 193 Query: 174 EELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYL 233 EEL VDL+E++ +L LL S DPAGVGARSA ECL LQ+ RL P TR LAL IV +L Sbjct: 194 EELEVDLDEMNAALALLHSFDPAGVGARSASECLKLQLLRLDASP--TRTLALDIVAHHL 251 Query: 234 PLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNG 293 L A RDF +++K L +D+DLR+A +IR P PGA + + +DYVVPD++V++T G Sbjct: 252 ELLAARDFTRLRKHLKANDDDLRDAHILIRSLEPFPGAAYGKAEADYVVPDIMVRKTAQG 311 Query: 294 WQVMLNHEVMPKLRVNAMYASALKQAKGE---GSLSSQLQEAKWLIKNMRQRFDTILRVA 350 WQ LN EV+PKLR+N +YA+ L+ +G+ GSL QLQEA+WLIKN++QRF+TILRVA Sbjct: 312 WQAELNPEVVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRFETILRVA 371 Query: 351 QAIVERQRNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFG 410 QAIVERQ++FF HG +AMRPLVLREIADTLGLHEST+SRVTT KYMLTP G E KYFFG Sbjct: 372 QAIVERQKSFFVHGEIAMRPLVLREIADTLGLHESTVSRVTTGKYMLTPFGTLEFKYFFG 431 Query: 411 SHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREV 470 SHV+T+TGG ASSTAIRALIKQLIGAENP++PLSDS+IA++LAEQG VVARRTVAKYRE Sbjct: 432 SHVSTDTGGAASSTAIRALIKQLIGAENPKSPLSDSRIAELLAEQGFVVARRTVAKYREA 491 Query: 471 LKIPPVNLRKSL 482 LKIP VNLRKSL Sbjct: 492 LKIPAVNLRKSL 503 >B5WNS0.1 B5WNS0_9BURK RNA polymerase, sigma 54 subunit, RpoN Length = 505 Score = 565 bits (1456), Expect = e-159, Method: Compositional matrix adjust. Identities = 299/500 (59%), Positives = 366/500 (73%), Gaps = 27/500 (5%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAV------SA 54 LTPQLQQSIRLLQLSTLEL QE+ ++ NPLLE D+ + + +R+ ADG+V S+ Sbjct: 15 LTPQLQQSIRLLQLSTLELQQEVAMAISQNPLLENEDEWIASPLRVAADGSVIAQTPGSS 74 Query: 55 APS-------SGVSETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARS 107 AP+ S SE TG A S P D EY A +G S W+ DD RS Sbjct: 75 APADPMAGNGSTSSEGTGERAES-GEPQGVD-----EYNGLAGDGGGDSSQWNLDDYGRS 128 Query: 108 GKSPDDEDARPQLEAHE--ITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPL 165 G + DD+D P L+ HE +LR+HL+ Q+RVT + RDRAL+ L ++LDD GYL L Sbjct: 129 GNASDDDDL-PPLQIHESSTSLRDHLMAQLRVTQASPRDRALITFLIESLDDDGYLAATL 187 Query: 166 EDILARLPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLA 225 E++LA LPEEL VDL+EL+ +L LL S DP+GVGARSA ECL LQ+ RL P TR LA Sbjct: 188 EEVLADLPEELEVDLDELNAALALLHSFDPSGVGARSASECLKLQLLRLDPSP--TRTLA 245 Query: 226 LKIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDV 285 L IV YL L A RDF +++K L D++LR+A +IR P PGA + + +DYVVPD+ Sbjct: 246 LDIVGHYLELLAARDFTRLRKHLKASDDELRDAHMLIRSLEPFPGAAYGKAEADYVVPDI 305 Query: 286 IVKQTKNGWQVMLNHEVMPKLRVNAMYASALKQAKGE---GSLSSQLQEAKWLIKNMRQR 342 +V++T GWQ LN EV+PKLR+N +YA+ L+ +G+ GSL QLQEA+WLIKN++QR Sbjct: 306 MVRKTAQGWQAELNPEVVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQR 365 Query: 343 FDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGM 402 F+TILRVAQAIVERQ++FF HG +AMRPLVLREIADTLGLHEST+SRVTT KYMLTP G Sbjct: 366 FETILRVAQAIVERQKSFFVHGEIAMRPLVLREIADTLGLHESTVSRVTTGKYMLTPFGT 425 Query: 403 FELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARR 462 E KYFFGSHV+T+TGG ASSTAIRALIKQLIGAENP++PLSDS+IA++LAEQG VVARR Sbjct: 426 LEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAENPKSPLSDSRIAELLAEQGFVVARR 485 Query: 463 TVAKYREVLKIPPVNLRKSL 482 TVAKYRE LKIP VNLRKSL Sbjct: 486 TVAKYREALKIPAVNLRKSL 505 >E8YLY4.1 E8YLY4_9BURK RNA polymerase, sigma 54 subunit, RpoN Length = 505 Score = 563 bits (1452), Expect = e-158, Method: Compositional matrix adjust. Identities = 297/494 (60%), Positives = 367/494 (74%), Gaps = 15/494 (3%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGA-VSAAPSSG 59 LTPQLQQSIRLLQLSTLEL QE+ ++ NPLLE DD + + +R+ ADG+ ++ AP S Sbjct: 15 LTPQLQQSIRLLQLSTLELQQEVATAISQNPLLENEDDWIASPLRVAADGSLIAQAPGSA 74 Query: 60 VSE----TTGSEASSEAAPAAADGESSF--EYQDTAPEGVSGDSDWSFDDVARSGKSPDD 113 GS +S+ ++ + +GE EY + +G S W+ DD RSG + DD Sbjct: 75 TPPDQMGGNGSSSSTSSSERSENGEPQGVDEYNGLSGDGNGDASQWNLDDYGRSGNASDD 134 Query: 114 EDARPQLEAHE--ITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILAR 171 +D P L+ HE +LR+HL+ Q+RVT QRDRAL+ L ++LDD GYL LE++LA Sbjct: 135 DDL-PPLQIHESSTSLRDHLMAQLRVTQAGQRDRALVTFLIESLDDDGYLAATLEEVLAD 193 Query: 172 LPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVED 231 LPEEL VDL+EL+ +L LL S DPAGVGARSA ECL LQ+ RL P TR LAL IV Sbjct: 194 LPEELEVDLDELNAALALLHSFDPAGVGARSASECLKLQLLRLEPSP--TRALALDIVAH 251 Query: 232 YLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTK 291 YL L A RDF +++K L D+DLR+A A+IR P PGA + + +DYVVPD++V++T Sbjct: 252 YLELLAARDFTRLRKHLKASDDDLRDAHALIRSLEPFPGAAYGKAEADYVVPDIMVRKTA 311 Query: 292 NGWQVMLNHEVMPKLRVNAMYASALKQAKGE---GSLSSQLQEAKWLIKNMRQRFDTILR 348 GWQ LN EV+PKLR+N +YA+ L+ +G+ GSL QLQEA+WLIKN++QRF+TILR Sbjct: 312 QGWQAELNPEVVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRFETILR 371 Query: 349 VAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYF 408 VAQAIVERQ++FF HG +AMRPLVLREIADTLGLHEST+SRVTT KYMLTP G E KYF Sbjct: 372 VAQAIVERQKSFFVHGEIAMRPLVLREIADTLGLHESTVSRVTTGKYMLTPFGTLEFKYF 431 Query: 409 FGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYR 468 FGSHV+T+TGG ASSTAIRALIKQLIGAEN +TPLSDS+IA++LAEQG VVARRTVAKYR Sbjct: 432 FGSHVSTDTGGAASSTAIRALIKQLIGAENAKTPLSDSRIAELLAEQGFVVARRTVAKYR 491 Query: 469 EVLKIPPVNLRKSL 482 E L+IP VNLRKSL Sbjct: 492 EALRIPAVNLRKSL 505 >C3X4U3.1 C3X4U3_OXAFO RNA polymerase factor sigma-54 Length = 491 Score = 562 bits (1449), Expect = e-158, Method: Compositional matrix adjust. Identities = 276/482 (57%), Positives = 360/482 (74%), Gaps = 5/482 (1%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGV 60 LTPQLQQSIRLLQLS+LEL++E+ + L +NPLLERLDD L N+ R ADG++ P S Sbjct: 15 LTPQLQQSIRLLQLSSLELNEEIGRALEENPLLERLDDPLANTTRFQADGSIIRQPVSS- 73 Query: 61 SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQL 120 ET E++ ++ +D + FE G + +D S + PDDE +PQL Sbjct: 74 GETPYDESAHGSSGEPSDLTAPFENTS----GSAEHDHLIWDSAKASDRHPDDERFQPQL 129 Query: 121 EAHEITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLEDILARLPEELGVDL 180 EA +L+EHL Q+R+ R QR RAL EL+ DALD +GYL+E LE+++ LP ELG+ Sbjct: 130 EAPPESLKEHLRSQMRLAVRNQRQRALAELIIDALDSNGYLQETLEEMIEWLPAELGIAH 189 Query: 181 EELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLALKIVEDYLPLFAQRD 240 +EL +L +Q DP GVGAR++ ECLA+QIR + +P++ R+ AL IVE++L LFAQRD Sbjct: 190 KELEETLVCIQGFDPPGVGARNSAECLAIQIRLMQNIPYIVRKQALNIVENHLKLFAQRD 249 Query: 241 FNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNH 300 F ++KKAL+CDDEDLREA VIR+C PHPGA +A DA+D V+P+++V + W LN Sbjct: 250 FIRLKKALECDDEDLREATEVIRRCNPHPGAAYANDAADVVIPEIVVVKKDGAWHAELNT 309 Query: 301 EVMPKLRVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNF 360 + MPK+R+N MY LK A + SL+++ QEAKWLI+N+ QRF+TIL+V++AI+ERQ+NF Sbjct: 310 DAMPKIRINRMYGDVLKSASNKTSLNTRFQEAKWLIRNINQRFETILKVSEAIIERQQNF 369 Query: 361 FSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMFELKYFFGSHVATETGGE 420 FS GA +MRPLVLREIADTLGLHESTISRVTTQK+MLTP G+FELKYFFGSH+ATE GGE Sbjct: 370 FSFGATSMRPLVLREIADTLGLHESTISRVTTQKFMLTPLGIFELKYFFGSHIATEGGGE 429 Query: 421 ASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAKYREVLKIPPVNLRK 480 ASSTAIR IKQLI E+ + P SD+KIA +LA +G+V+ARRT+AKYR++LKIPP +LRK Sbjct: 430 ASSTAIREKIKQLIATEDRKKPYSDNKIAQILAREGLVIARRTIAKYRDILKIPPASLRK 489 Query: 481 SL 482 SL Sbjct: 490 SL 491 >D5NMI8.1 D5NMI8_9BURK RNA polymerase, sigma 54 subunit, RpoN Length = 505 Score = 561 bits (1445), Expect = e-157, Method: Compositional matrix adjust. Identities = 295/499 (59%), Positives = 366/499 (73%), Gaps = 25/499 (5%) Query: 1 LTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGA-VSAAPSSG 59 LTPQLQQSIRLLQLSTLEL QE+ ++ NPLLE DD + + +R+ ADG+ ++ AP+S Sbjct: 15 LTPQLQQSIRLLQLSTLELQQEVAMAISQNPLLENEDDWIASPLRVAADGSLIAQAPNSS 74 Query: 60 V-----------SETTGSEASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSG 108 S ++ SE + P D EY A + S W+ DD RSG Sbjct: 75 APPDQMGGSTSSSSSSSSERAENGEPQGVD-----EYNGLAGDSNGDASQWNLDDYGRSG 129 Query: 109 KSPDDEDARPQLEAHE--ITLREHLLEQIRVTARTQRDRALLELLTDALDDSGYLEEPLE 166 + DD+D P L+ HE +LR+HL+ Q+RVT + RDRAL+ L ++LDD GYL LE Sbjct: 130 NASDDDDL-PPLQIHESSTSLRDHLMAQLRVTQASPRDRALVTFLIESLDDDGYLAATLE 188 Query: 167 DILARLPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLAL 226 ++LA LPEEL VDL+EL+ +L LL S DPAGVGARSA ECL LQ+ RL P TR LAL Sbjct: 189 EVLADLPEELEVDLDELNAALALLHSFDPAGVGARSASECLKLQLLRLDASP--TRTLAL 246 Query: 227 KIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVI 286 +IV +L L A RDF +++K L +D+DLR+A +IR P PGA + + +DYVVPD++ Sbjct: 247 EIVAHHLELLAARDFTRLRKHLKANDDDLRDAHVLIRSLEPFPGAAYGKAEADYVVPDIM 306 Query: 287 VKQTKNGWQVMLNHEVMPKLRVNAMYASALKQAKGE---GSLSSQLQEAKWLIKNMRQRF 343 V++T GWQ LN EV+PKLR+N +YA+ L+ +G+ GSL QLQEA+WLIKN++QRF Sbjct: 307 VRKTAQGWQAELNPEVVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRF 366 Query: 344 DTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQKYMLTPHGMF 403 +TILRVAQAIVERQ++FF HG +AMRPLVLREIADTLGLHEST+SRVTT KYMLTP G Sbjct: 367 ETILRVAQAIVERQKSFFVHGEIAMRPLVLREIADTLGLHESTVSRVTTGKYMLTPFGTL 426 Query: 404 ELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRT 463 E KYFFGSHV+T+TGG ASSTAIRALIKQLIGAENP++PLSDS+IA++LAEQG VVARRT Sbjct: 427 EFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAENPKSPLSDSRIAELLAEQGFVVARRT 486 Query: 464 VAKYREVLKIPPVNLRKSL 482 VAKYRE LKIP VNLRKSL Sbjct: 487 VAKYREALKIPAVNLRKSL 505